diff --git a/changelog.d/14926.bugfix b/changelog.d/14926.bugfix
new file mode 100644
index 0000000000..f1f34cd6ba
--- /dev/null
+++ b/changelog.d/14926.bugfix
@@ -0,0 +1 @@
+Fix a regression introduced in Synapse 1.69.0 which can result in database corruption when database migrations are interrupted on sqlite.
diff --git a/synapse/storage/engines/_base.py b/synapse/storage/engines/_base.py
index bc9ca3a53c..0363cdc038 100644
--- a/synapse/storage/engines/_base.py
+++ b/synapse/storage/engines/_base.py
@@ -133,8 +133,9 @@ class BaseDatabaseEngine(Generic[ConnectionType, CursorType], metaclass=abc.ABCM
 
         This is not provided by DBAPI2, and so needs engine-specific support.
 
-        Some database engines may automatically COMMIT the ongoing transaction both
-        before and after executing the script.
+        Any ongoing transaction is committed before executing the script in its own
+        transaction. The script transaction is left open and it is the responsibility of
+        the caller to commit it.
         """
         ...
 
diff --git a/synapse/storage/engines/postgres.py b/synapse/storage/engines/postgres.py
index f9f562ea45..b350f57ccb 100644
--- a/synapse/storage/engines/postgres.py
+++ b/synapse/storage/engines/postgres.py
@@ -220,5 +220,9 @@ class PostgresEngine(
         """Execute a chunk of SQL containing multiple semicolon-delimited statements.
 
         Psycopg2 seems happy to do this in DBAPI2's `execute()` function.
+
+        For consistency with SQLite, any ongoing transaction is committed before
+        executing the script in its own transaction. The script transaction is
+        left open and it is the responsibility of the caller to commit it.
         """
-        cursor.execute(script)
+        cursor.execute(f"COMMIT; BEGIN TRANSACTION; {script}")
diff --git a/synapse/storage/engines/sqlite.py b/synapse/storage/engines/sqlite.py
index 2f7df85ce4..28751e89a5 100644
--- a/synapse/storage/engines/sqlite.py
+++ b/synapse/storage/engines/sqlite.py
@@ -135,14 +135,16 @@ class Sqlite3Engine(BaseDatabaseEngine[sqlite3.Connection, sqlite3.Cursor]):
         > than one statement with it, it will raise a Warning. Use executescript() if
         > you want to execute multiple SQL statements with one call.
 
-        The script is wrapped in transaction control statemnets, since the docs for
+        The script is prefixed with a `BEGIN TRANSACTION`, since the docs for
         `executescript` warn:
 
         > If there is a pending transaction, an implicit COMMIT statement is executed
         > first. No other implicit transaction control is performed; any transaction
         > control must be added to sql_script.
         """
-        cursor.executescript(f"BEGIN TRANSACTION;\n{script}\nCOMMIT;")
+        # The implementation of `executescript` can be found at
+        # https://github.com/python/cpython/blob/3.11/Modules/_sqlite/cursor.c#L1035.
+        cursor.executescript(f"BEGIN TRANSACTION; {script}")
 
 
 # Following functions taken from: https://github.com/coleifer/peewee
diff --git a/tests/storage/test_database.py b/tests/storage/test_database.py
index 543cce6b3e..8cd7c89ca2 100644
--- a/tests/storage/test_database.py
+++ b/tests/storage/test_database.py
@@ -22,6 +22,7 @@ from twisted.test.proto_helpers import MemoryReactor
 from synapse.server import HomeServer
 from synapse.storage.database import (
     DatabasePool,
+    LoggingDatabaseConnection,
     LoggingTransaction,
     make_tuple_comparison_clause,
 )
@@ -37,6 +38,101 @@ class TupleComparisonClauseTestCase(unittest.TestCase):
         self.assertEqual(args, [1, 2])
 
 
+class ExecuteScriptTestCase(unittest.HomeserverTestCase):
+    """Tests for `BaseDatabaseEngine.executescript` implementations."""
+
+    def prepare(self, reactor: MemoryReactor, clock: Clock, hs: HomeServer) -> None:
+        self.store = hs.get_datastores().main
+        self.db_pool: DatabasePool = self.store.db_pool
+        self.get_success(
+            self.db_pool.runInteraction(
+                "create",
+                lambda txn: txn.execute("CREATE TABLE foo (name TEXT PRIMARY KEY)"),
+            )
+        )
+
+    def test_transaction(self) -> None:
+        """Test that all statements are run in a single transaction."""
+
+        def run(conn: LoggingDatabaseConnection) -> None:
+            cur = conn.cursor(txn_name="test_transaction")
+            self.db_pool.engine.executescript(
+                cur,
+                ";".join(
+                    [
+                        "INSERT INTO foo (name) VALUES ('transaction test')",
+                        # This next statement will fail. When `executescript` is not
+                        # transactional, the previous row will be observed later.
+                        "INSERT INTO foo (name) VALUES ('transaction test')",
+                    ]
+                ),
+            )
+
+        self.get_failure(
+            self.db_pool.runWithConnection(run),
+            self.db_pool.engine.module.IntegrityError,
+        )
+
+        self.assertIsNone(
+            self.get_success(
+                self.db_pool.simple_select_one_onecol(
+                    "foo",
+                    keyvalues={"name": "transaction test"},
+                    retcol="name",
+                    allow_none=True,
+                )
+            ),
+            "executescript is not running statements inside a transaction",
+        )
+
+    def test_commit(self) -> None:
+        """Test that the script transaction remains open and can be committed."""
+
+        def run(conn: LoggingDatabaseConnection) -> None:
+            cur = conn.cursor(txn_name="test_commit")
+            self.db_pool.engine.executescript(
+                cur, "INSERT INTO foo (name) VALUES ('commit test')"
+            )
+            cur.execute("COMMIT")
+
+        self.get_success(self.db_pool.runWithConnection(run))
+
+        self.assertIsNotNone(
+            self.get_success(
+                self.db_pool.simple_select_one_onecol(
+                    "foo",
+                    keyvalues={"name": "commit test"},
+                    retcol="name",
+                    allow_none=True,
+                )
+            ),
+        )
+
+    def test_rollback(self) -> None:
+        """Test that the script transaction remains open and can be rolled back."""
+
+        def run(conn: LoggingDatabaseConnection) -> None:
+            cur = conn.cursor(txn_name="test_rollback")
+            self.db_pool.engine.executescript(
+                cur, "INSERT INTO foo (name) VALUES ('rollback test')"
+            )
+            cur.execute("ROLLBACK")
+
+        self.get_success(self.db_pool.runWithConnection(run))
+
+        self.assertIsNone(
+            self.get_success(
+                self.db_pool.simple_select_one_onecol(
+                    "foo",
+                    keyvalues={"name": "rollback test"},
+                    retcol="name",
+                    allow_none=True,
+                )
+            ),
+            "executescript is not leaving the script transaction open",
+        )
+
+
 class CallbacksTestCase(unittest.HomeserverTestCase):
     """Tests for transaction callbacks."""