diff --git a/core/dbt/contracts/graph/model_config.py b/core/dbt/contracts/graph/model_config.py
index ad41aa2047d..c8999452d9f 100644
--- a/core/dbt/contracts/graph/model_config.py
+++ b/core/dbt/contracts/graph/model_config.py
@@ -274,10 +274,6 @@ def finalize_and_validate(self: T) -> T:
 @dataclass
 class SourceConfig(BaseConfig):
     enabled: bool = True
-    quoting: Dict[str, Any] = field(
-        default_factory=dict,
-        metadata=MergeBehavior.Update.meta(),
-    )
 
 
 @dataclass
diff --git a/core/dbt/deprecations.py b/core/dbt/deprecations.py
index 20df3919de7..baeffd79b53 100644
--- a/core/dbt/deprecations.py
+++ b/core/dbt/deprecations.py
@@ -92,23 +92,16 @@ class ModelsKeyNonModelDeprecation(DBTDeprecation):
     '''
 
 
-class BigQueryPartitionByStringDeprecation(DBTDeprecation):
-    _name = 'bq-partition-by-string'
-
-    _description = '''
-    As of dbt v0.16.0, the `partition_by` config in BigQuery accepts a
-    dictionary containing `field` and `data_type`.
-
-
-    - Provided partition_by: {raw_partition_by}
-
-
-    - dbt inferred: {inferred_partition_by}
-
+class DbtProjectYamlDeprecation(DBTDeprecation):
+    _name = 'dbt-project-yaml-v1'
+    _description = '''\
+    The existing dbt_project.yml format has been deprecated. dbt_project.yml
+    has been upgraded to config version 2. A future version of dbt will remove
+    support for the existing ("version 1") format.
 
+    Documentation for dbt_project.yml version 2 can be found here:
 
-    For more information, see:
-    https://docs.getdbt.com/docs/upgrading-to-0-16-0
+        DOCS LINK GOES HERE
     '''
 
 
@@ -154,7 +147,7 @@ def warn(name, *args, **kwargs):
     NotADictionaryDeprecation(),
     ColumnQuotingDeprecation(),
     ModelsKeyNonModelDeprecation(),
-    BigQueryPartitionByStringDeprecation(),
+    DbtProjectYamlDeprecation(),
 ]
 
 deprecations: Dict[str, DBTDeprecation] = {
diff --git a/core/dbt/include/global_project/dbt_project.yml b/core/dbt/include/global_project/dbt_project.yml
index 87bfe0dd8eb..dec6d7d452f 100644
--- a/core/dbt/include/global_project/dbt_project.yml
+++ b/core/dbt/include/global_project/dbt_project.yml
@@ -1,4 +1,4 @@
-
+config-version: 2
 name: dbt
 version: 1.0
 
diff --git a/core/dbt/parser/manifest.py b/core/dbt/parser/manifest.py
index ecfe2f3b7d3..490ef47f6b1 100644
--- a/core/dbt/parser/manifest.py
+++ b/core/dbt/parser/manifest.py
@@ -6,6 +6,7 @@
 import dbt.exceptions
 import dbt.flags
 
+from dbt import deprecations
 from dbt.helper_types import PathSet
 from dbt.include.global_project import PACKAGES
 from dbt.logger import GLOBAL_LOGGER as logger, DbtProcessState
@@ -331,6 +332,9 @@ def load_all(
     ) -> Manifest:
         with PARSING_STATE:
             projects = root_config.load_dependencies()
+            for project in projects.values():
+                if project.config_version == 1:
+                    deprecations.warn('dbt-project-yaml-v1')
             loader = cls(root_config, projects, macro_hook)
             loader.load(internal_manifest=internal_manifest)
             loader.write_parse_results()
diff --git a/core/dbt/task/base.py b/core/dbt/task/base.py
index a872115dc4a..d70ac8f9817 100644
--- a/core/dbt/task/base.py
+++ b/core/dbt/task/base.py
@@ -2,6 +2,7 @@
 from abc import ABCMeta, abstractmethod
 from typing import Type, Union
 
+from dbt import deprecations
 from dbt.adapters.factory import register_adapter
 from dbt.config import RuntimeConfig, Project
 from dbt.config.profile import read_profile, PROFILES_DIR
@@ -132,6 +133,8 @@ class ConfiguredTask(BaseTask):
     ConfigType = RuntimeConfig
 
     def __init__(self, args, config):
+        if config.config_version == 1:
+            deprecations.warn('dbt-project-yaml-v1')
         super().__init__(args, config)
         register_adapter(self.config)
 
diff --git a/plugins/bigquery/dbt/include/bigquery/dbt_project.yml b/plugins/bigquery/dbt/include/bigquery/dbt_project.yml
index edae5386994..b4e88b7b0a4 100644
--- a/plugins/bigquery/dbt/include/bigquery/dbt_project.yml
+++ b/plugins/bigquery/dbt/include/bigquery/dbt_project.yml
@@ -1,4 +1,4 @@
-
+config-version: 2
 name: dbt_bigquery
 version: 1.0
 
diff --git a/plugins/postgres/dbt/include/postgres/dbt_project.yml b/plugins/postgres/dbt/include/postgres/dbt_project.yml
index 266eba33db9..081149f6fd7 100644
--- a/plugins/postgres/dbt/include/postgres/dbt_project.yml
+++ b/plugins/postgres/dbt/include/postgres/dbt_project.yml
@@ -1,4 +1,4 @@
-
+config-version: 2
 name: dbt_postgres
 version: 1.0
 
diff --git a/plugins/redshift/dbt/include/redshift/dbt_project.yml b/plugins/redshift/dbt/include/redshift/dbt_project.yml
index edcd805ab7a..1efdab2c1b0 100644
--- a/plugins/redshift/dbt/include/redshift/dbt_project.yml
+++ b/plugins/redshift/dbt/include/redshift/dbt_project.yml
@@ -1,4 +1,4 @@
-
+config-version: 2
 name: dbt_redshift
 version: 1.0
 
diff --git a/plugins/snowflake/dbt/include/snowflake/dbt_project.yml b/plugins/snowflake/dbt/include/snowflake/dbt_project.yml
index 587a22b5232..fcd2c9a4822 100644
--- a/plugins/snowflake/dbt/include/snowflake/dbt_project.yml
+++ b/plugins/snowflake/dbt/include/snowflake/dbt_project.yml
@@ -1,4 +1,4 @@
-
+config-version: 2
 name: dbt_snowflake
 version: 1.0
 
diff --git a/test/integration/001_simple_copy_test/test_simple_copy.py b/test/integration/001_simple_copy_test/test_simple_copy.py
index 373c7712ff8..bf27171e236 100644
--- a/test/integration/001_simple_copy_test/test_simple_copy.py
+++ b/test/integration/001_simple_copy_test/test_simple_copy.py
@@ -397,7 +397,7 @@ def postgres_profile(self):
 
     @property
     def project_config(self):
-        return {}
+        return {'config-version': 2}
 
     @use_profile('postgres')
     def test_postgres_run_mixed_case(self):
diff --git a/test/integration/006_simple_dependency_test/test_local_dependency.py b/test/integration/006_simple_dependency_test/test_local_dependency.py
index 5487b5700c0..ec1def2b199 100644
--- a/test/integration/006_simple_dependency_test/test_local_dependency.py
+++ b/test/integration/006_simple_dependency_test/test_local_dependency.py
@@ -35,6 +35,11 @@ def packages_config(self):
             ]
         }
 
+    def run_dbt(self, *args, **kwargs):
+        strict = kwargs.pop('strict', False)
+        kwargs['strict'] = strict
+        return super().run_dbt(*args, **kwargs)
+
 
 class TestSimpleDependency(BaseDependencyTest):
 
@@ -76,7 +81,7 @@ def test_postgres_no_dependency_paths(self):
         # this should work
         local_path = os.path.join('local_models', 'my_model.sql')
         results = self.run_dbt(
-            ['run', '--models',  f'+{local_path}']
+            ['run', '--models',  f'+{local_path}'],
         )
         # should run the dependency and my_model
         self.assertEqual(len(results), 2)
@@ -103,7 +108,7 @@ def models(self):
     def test_postgres_missing_dependency(self):
         # dbt should raise a dbt exception, not raise a parse-time TypeError.
         with self.assertRaises(dbt.exceptions.Exception) as exc:
-            self.run_dbt(['compile'])
+            self.run_dbt(['compile'], strict=False)
         message = str(exc.exception)
         self.assertIn('no_such_dependency', message)
         self.assertIn('is undefined', message)
@@ -123,6 +128,11 @@ def project_config(self):
         return {
             'config-version': 2,
             'macro-paths': ['schema_override_macros'],
+            'models': {
+                'config': {
+                    'schema': 'dbt_test',
+                },
+            },
             'seeds': {
                 'config': {
                     'schema': 'dbt_test',
@@ -230,6 +240,11 @@ def packages_config(self):
             ]
         }
 
+    def run_dbt(self, *args, **kwargs):
+        strict = kwargs.pop('strict', False)
+        kwargs['strict'] = strict
+        return super().run_dbt(*args, **kwargs)
+
     @use_profile('postgres')
     def test_postgres_local_dependency_same_name(self):
         with self.assertRaises(dbt.exceptions.DependencyException):
diff --git a/test/integration/006_simple_dependency_test/test_simple_dependency.py b/test/integration/006_simple_dependency_test/test_simple_dependency.py
index a7e64821d28..cf525968593 100644
--- a/test/integration/006_simple_dependency_test/test_simple_dependency.py
+++ b/test/integration/006_simple_dependency_test/test_simple_dependency.py
@@ -30,6 +30,12 @@ def packages_config(self):
             ]
         }
 
+    def run_dbt(self, cmd=None, *args, **kwargs):
+        if cmd and cmd[0] != 'deps':
+            strict = kwargs.pop('strict', False)
+            kwargs['strict'] = strict
+        return super().run_dbt(cmd, *args, **kwargs)
+
     def run_deps(self):
         return self.run_dbt(["deps"])
 
@@ -194,7 +200,7 @@ def packages_config(self):
 
     def deps_run_assert_equality(self):
         self.run_dbt(["deps"])
-        results = self.run_dbt(["run"])
+        results = self.run_dbt(["run"], strict=False)
         self.assertEqual(len(results),  4)
 
         self.assertTablesEqual("seed","table_model")
diff --git a/test/integration/006_simple_dependency_test/test_simple_dependency_with_configs.py b/test/integration/006_simple_dependency_test/test_simple_dependency_with_configs.py
index 4441397b589..ca05c30109a 100644
--- a/test/integration/006_simple_dependency_test/test_simple_dependency_with_configs.py
+++ b/test/integration/006_simple_dependency_test/test_simple_dependency_with_configs.py
@@ -15,6 +15,11 @@ def schema(self):
     def models(self):
         return "models"
 
+    def run_dbt(self, *args, **kwargs):
+        strict = kwargs.pop('strict', False)
+        kwargs['strict'] = strict
+        return super().run_dbt(*args, **kwargs)
+
 class TestSimpleDependencyWithConfigs(BaseTestSimpleDependencyWithConfigs):
     @property
     def packages_config(self):
diff --git a/test/integration/009_data_tests_test/test_data_tests.py b/test/integration/009_data_tests_test/test_data_tests.py
index 23e4271b905..c255c11932d 100644
--- a/test/integration/009_data_tests_test/test_data_tests.py
+++ b/test/integration/009_data_tests_test/test_data_tests.py
@@ -11,6 +11,7 @@ class TestDataTests(DBTIntegrationTest):
     @property
     def project_config(self):
         return {
+            'config-version': 2,
             "test-paths": [self.test_path]
         }
 
diff --git a/test/integration/012_deprecation_tests/test_deprecations.py b/test/integration/012_deprecation_tests/test_deprecations.py
index ef189063b99..a72815ff855 100644
--- a/test/integration/012_deprecation_tests/test_deprecations.py
+++ b/test/integration/012_deprecation_tests/test_deprecations.py
@@ -17,12 +17,12 @@ def schema(self):
     def dir(path):
         return path.lstrip("/")
 
+
+class TestDeprecations(BaseTestDeprecations):
     @property
     def models(self):
         return self.dir("models")
 
-
-class TestDeprecations(BaseTestDeprecations):
     @use_profile('postgres')
     def test_postgres_deprecations_fail(self):
         self.run_dbt(strict=True, expect_pass=False)
@@ -79,3 +79,29 @@ def test_postgres_deprecations(self):
         self.run_dbt(strict=False)
         expected = {'models-key-mismatch'}
         self.assertEqual(expected, deprecations.active_deprecations)
+
+
+class TestDbtProjectYamlV1Deprecation(BaseTestDeprecations):
+    @property
+    def models(self):
+        return 'boring-models'
+
+    @property
+    def project_config(self):
+        # No config-version set!
+        return {}
+
+    @use_profile('postgres')
+    def test_postgres_project_deprecations_fail(self):
+        with self.assertRaises(dbt.exceptions.CompilationException) as exc:
+            self.run_dbt(strict=True)
+
+        exc_str = ' '.join(str(exc.exception).split())  # flatten all whitespace
+        self.assertIn('dbt_project.yml has been upgraded to config version 2', exc_str)
+
+    @use_profile('postgres')
+    def test_postgres_project_deprecations(self):
+        self.assertEqual(deprecations.active_deprecations, set())
+        self.run_dbt(strict=False)
+        expected = {'dbt-project-yaml-v1'}
+        self.assertEqual(expected, deprecations.active_deprecations)
diff --git a/test/integration/029_docs_generate_tests/test_docs_generate.py b/test/integration/029_docs_generate_tests/test_docs_generate.py
index 2605746c641..6229c016ff8 100644
--- a/test/integration/029_docs_generate_tests/test_docs_generate.py
+++ b/test/integration/029_docs_generate_tests/test_docs_generate.py
@@ -1525,7 +1525,6 @@ def expected_postgres_references_manifest(self, model_database=None):
                     },
                     'config': {
                         'enabled': True,
-                        'quoting': {},
                     },
                     'quoting': {
                         'database': False,
diff --git a/test/integration/034_redshift_test/test_late_binding_view.py b/test/integration/034_redshift_test/test_late_binding_view.py
index fdb0194e0aa..656e1c2d801 100644
--- a/test/integration/034_redshift_test/test_late_binding_view.py
+++ b/test/integration/034_redshift_test/test_late_binding_view.py
@@ -19,9 +19,12 @@ def models(self):
     @property
     def project_config(self):
         return {
+            'config-version': 2,
             'data-paths': [self.dir('seed')],
             'seeds': {
-                'quote_columns': False,
+                'config': {
+                    'quote_columns': False,
+                }
             }
         }
 
diff --git a/test/integration/040_override_database_test/test_override_database.py b/test/integration/040_override_database_test/test_override_database.py
index a07652ca22d..c3cf1130ec2 100644
--- a/test/integration/040_override_database_test/test_override_database.py
+++ b/test/integration/040_override_database_test/test_override_database.py
@@ -109,17 +109,22 @@ def run_database_override(self):
             func = lambda x: x
 
         self.use_default_project({
+            'config-version': 2,
+            'vars': {
+                'alternate_db': self.alternative_database,
+            },
             'models': {
-                'vars': {
-                    'alternate_db': self.alternative_database,
+                'config': {
+                    'database': self.alternative_database,
                 },
-                'database': self.alternative_database,
                 'test': {
                     'subfolder': {
-                        'database': self.default_database,
-                    },
-                },
-            }
+                        'config': {
+                            'database': self.default_database,
+                        }
+                    }
+                }
+            },
         })
         self.run_dbt_notstrict(['seed'])
 
@@ -149,7 +154,12 @@ def run_database_override(self):
             func = lambda x: x
 
         self.use_default_project({
-            'seeds': {'database': self.alternative_database}
+            'config-version': 2,
+            'seeds': {
+                'config': {
+                    'database': self.alternative_database
+                },
+            },
         })
         self.run_dbt_notstrict(['seed'])
 
diff --git a/test/integration/047_dbt_ls_test/test_ls.py b/test/integration/047_dbt_ls_test/test_ls.py
index e066d9fc975..d1e5e5123dc 100644
--- a/test/integration/047_dbt_ls_test/test_ls.py
+++ b/test/integration/047_dbt_ls_test/test_ls.py
@@ -225,7 +225,6 @@ def expect_source_output(self):
             'json': {
                 'config': {
                     'enabled': True,
-                    'quoting': {},
                 },
                 'package_name': 'test',
                 'name': 'my_table',
diff --git a/test/integration/048_rpc_test/test_rpc.py b/test/integration/048_rpc_test/test_rpc.py
index 6d45d91fff4..e981ccfa256 100644
--- a/test/integration/048_rpc_test/test_rpc.py
+++ b/test/integration/048_rpc_test/test_rpc.py
@@ -22,7 +22,7 @@ class ServerProcess(dbt.flags.MP_CONTEXT.Process):
     def __init__(self, port, profiles_dir, cli_vars=None):
         self.port = port
         handle_and_check_args = [
-            '--strict', 'rpc', '--log-cache-events',
+            'rpc', '--log-cache-events',
             '--port', str(self.port),
             '--profiles-dir', profiles_dir
         ]
diff --git a/test/integration/053_custom_materialization/override-view-adapter-dep/dbt_project.yml b/test/integration/053_custom_materialization/override-view-adapter-dep/dbt_project.yml
index 2c58789b48e..248abd809ac 100644
--- a/test/integration/053_custom_materialization/override-view-adapter-dep/dbt_project.yml
+++ b/test/integration/053_custom_materialization/override-view-adapter-dep/dbt_project.yml
@@ -1,3 +1,4 @@
 name: view_adapter_override
 version: '1.0'
 macro-paths: ['macros']
+config-version: 2
diff --git a/test/integration/053_custom_materialization/override-view-adapter-pass-dep/dbt_project.yml b/test/integration/053_custom_materialization/override-view-adapter-pass-dep/dbt_project.yml
index 2c58789b48e..248abd809ac 100644
--- a/test/integration/053_custom_materialization/override-view-adapter-pass-dep/dbt_project.yml
+++ b/test/integration/053_custom_materialization/override-view-adapter-pass-dep/dbt_project.yml
@@ -1,3 +1,4 @@
 name: view_adapter_override
 version: '1.0'
 macro-paths: ['macros']
+config-version: 2
diff --git a/test/integration/053_custom_materialization/override-view-default-dep/dbt_project.yml b/test/integration/053_custom_materialization/override-view-default-dep/dbt_project.yml
index 9b1515079d2..f8fe48084c0 100644
--- a/test/integration/053_custom_materialization/override-view-default-dep/dbt_project.yml
+++ b/test/integration/053_custom_materialization/override-view-default-dep/dbt_project.yml
@@ -1,3 +1,4 @@
 name: view_default_override
+config-version: 2
 version: '1.0'
 macro-paths: ['macros']
diff --git a/test/rpc/test_base.py b/test/rpc/test_base.py
index e94f86d49a6..e551a659fc5 100644
--- a/test/rpc/test_base.py
+++ b/test/rpc/test_base.py
@@ -601,7 +601,7 @@ def test_rpc_seed_threads(
     project_root, profiles_root, postgres_profile, unique_schema
 ):
     project = ProjectDefinition(
-        project_data={'seeds': {'quote_columns': False}},
+        project_data={'seeds': {'config': {'quote_columns': False}}},
         seeds={'data.csv': 'a,b\n1,hello\n2,goodbye'},
     )
     querier_ctx = get_querier(
@@ -626,7 +626,7 @@ def test_rpc_seed_include_exclude(
     project_root, profiles_root, postgres_profile, unique_schema
 ):
     project = ProjectDefinition(
-        project_data={'seeds': {'quote_columns': False}},
+        project_data={'seeds': {'config': {'quote_columns': False}}},
         seeds={
             'data_1.csv': 'a,b\n1,hello\n2,goodbye',
             'data_2.csv': 'a,b\n1,data',
@@ -773,7 +773,7 @@ def test_source_freshness(
     error_me = start_time - timedelta(days=2)
     # this should trigger a 'warn'
     project = ProjectDefinition(
-        project_data={'seeds': {'quote_columns': False}},
+        project_data={'seeds': {'config': {'quote_columns': False}}},
         seeds={
             'source.csv': 'a,b\n1,{}\n'.format(error_me.strftime('%Y-%m-%d %H:%M:%S')),
             'other_source.csv': 'a,b\n1,{}\n'.format(error_me.strftime('%Y-%m-%d %H:%M:%S'))
diff --git a/test/rpc/util.py b/test/rpc/util.py
index c684238f95c..86c62c5c536 100644
--- a/test/rpc/util.py
+++ b/test/rpc/util.py
@@ -37,7 +37,7 @@ def __init__(
         self.criteria = criteria
         self.error = None
         handle_and_check_args = [
-            '--strict', 'rpc', '--log-cache-events',
+            'rpc', '--log-cache-events',
             '--port', str(self.port),
             '--profiles-dir', profiles_dir
         ]
@@ -473,6 +473,7 @@ def __init__(
         seeds=None,
     ):
         self.project = {
+            'config-version': 2,
             'name': name,
             'version': version,
             'profile': profile,
diff --git a/test/unit/test_contracts_graph_parsed.py b/test/unit/test_contracts_graph_parsed.py
index d2ddf9a366d..dace3716bbb 100644
--- a/test/unit/test_contracts_graph_parsed.py
+++ b/test/unit/test_contracts_graph_parsed.py
@@ -1323,7 +1323,6 @@ def test_basic(self):
             'tags': [],
             'config': {
                 'enabled': True,
-                'quoting': {},
             }
         }
         source_def = self.ContractType(