diff --git a/swift/ql/integration-tests/autobuilder/xcode-fails-spm-works/Files.ql b/swift/ql/integration-tests/autobuilder/xcode-fails-spm-works/Files.ql
index 9782ea4ce0bd..0ef878215647 100644
--- a/swift/ql/integration-tests/autobuilder/xcode-fails-spm-works/Files.ql
+++ b/swift/ql/integration-tests/autobuilder/xcode-fails-spm-works/Files.ql
@@ -1,4 +1,5 @@
 import swift
 
 from File f
+where exists(f.getRelativePath()) or f instanceof UnknownFile
 select f
diff --git a/swift/ql/integration-tests/osx/canonical-case/Files.ql b/swift/ql/integration-tests/osx/canonical-case/Files.ql
index 9782ea4ce0bd..0ef878215647 100644
--- a/swift/ql/integration-tests/osx/canonical-case/Files.ql
+++ b/swift/ql/integration-tests/osx/canonical-case/Files.ql
@@ -1,4 +1,5 @@
 import swift
 
 from File f
+where exists(f.getRelativePath()) or f instanceof UnknownFile
 select f
diff --git a/swift/ql/integration-tests/osx/hello-ios/Files.ql b/swift/ql/integration-tests/osx/hello-ios/Files.ql
index 9782ea4ce0bd..0ef878215647 100644
--- a/swift/ql/integration-tests/osx/hello-ios/Files.ql
+++ b/swift/ql/integration-tests/osx/hello-ios/Files.ql
@@ -1,4 +1,5 @@
 import swift
 
 from File f
+where exists(f.getRelativePath()) or f instanceof UnknownFile
 select f
diff --git a/swift/ql/integration-tests/osx/hello-xcode/Files.ql b/swift/ql/integration-tests/osx/hello-xcode/Files.ql
index 9782ea4ce0bd..0ef878215647 100644
--- a/swift/ql/integration-tests/osx/hello-xcode/Files.ql
+++ b/swift/ql/integration-tests/osx/hello-xcode/Files.ql
@@ -1,4 +1,5 @@
 import swift
 
 from File f
+where exists(f.getRelativePath()) or f instanceof UnknownFile
 select f
diff --git a/swift/ql/integration-tests/posix/cross-references/Classes.ql b/swift/ql/integration-tests/posix/cross-references/Classes.ql
index dbdbcb723b99..d3c0d759de6b 100644
--- a/swift/ql/integration-tests/posix/cross-references/Classes.ql
+++ b/swift/ql/integration-tests/posix/cross-references/Classes.ql
@@ -1,5 +1,7 @@
 import swift
 
 from ClassDecl d
-where d.getLocation().getFile().getBaseName() != "Package.swift"
+where
+  d.getLocation().getFile().getBaseName() != "Package.swift" and
+  exists(d.getLocation().getFile().getRelativePath())
 select d
diff --git a/swift/ql/integration-tests/posix/cross-references/Deinitializers.ql b/swift/ql/integration-tests/posix/cross-references/Deinitializers.ql
index b92919487182..9180f63667f8 100644
--- a/swift/ql/integration-tests/posix/cross-references/Deinitializers.ql
+++ b/swift/ql/integration-tests/posix/cross-references/Deinitializers.ql
@@ -1,5 +1,7 @@
 import swift
 
 from Deinitializer d
-where d.getLocation().getFile().getBaseName() != "Package.swift"
+where
+  d.getLocation().getFile().getBaseName() != "Package.swift" and
+  exists(d.getLocation().getFile().getRelativePath())
 select d
diff --git a/swift/ql/integration-tests/posix/cross-references/Enums.ql b/swift/ql/integration-tests/posix/cross-references/Enums.ql
index 5417ec05610e..ebfcaafa0ef7 100644
--- a/swift/ql/integration-tests/posix/cross-references/Enums.ql
+++ b/swift/ql/integration-tests/posix/cross-references/Enums.ql
@@ -1,5 +1,7 @@
 import swift
 
 from EnumDecl d
-where d.getLocation().getFile().getBaseName() != "Package.swift"
+where
+  d.getLocation().getFile().getBaseName() != "Package.swift" and
+  exists(d.getLocation().getFile().getRelativePath())
 select d
diff --git a/swift/ql/integration-tests/posix/cross-references/Functions.ql b/swift/ql/integration-tests/posix/cross-references/Functions.ql
index d166c2a51ecf..50b9393d9530 100644
--- a/swift/ql/integration-tests/posix/cross-references/Functions.ql
+++ b/swift/ql/integration-tests/posix/cross-references/Functions.ql
@@ -1,5 +1,7 @@
 import codeql.swift.elements.decl.internal.AccessorOrNamedFunction
 
 from AccessorOrNamedFunction f
-where f.getLocation().getFile().getBaseName() != "Package.swift"
+where
+  f.getLocation().getFile().getBaseName() != "Package.swift" and
+  exists(f.getLocation().getFile().getRelativePath())
 select f
diff --git a/swift/ql/integration-tests/posix/cross-references/Initializers.ql b/swift/ql/integration-tests/posix/cross-references/Initializers.ql
index 743988464177..c9b5a4e136b4 100644
--- a/swift/ql/integration-tests/posix/cross-references/Initializers.ql
+++ b/swift/ql/integration-tests/posix/cross-references/Initializers.ql
@@ -1,5 +1,7 @@
 import swift
 
 from Initializer d
-where d.getLocation().getFile().getBaseName() != "Package.swift"
+where
+  d.getLocation().getFile().getBaseName() != "Package.swift" and
+  exists(d.getLocation().getFile().getRelativePath())
 select d
diff --git a/swift/ql/integration-tests/posix/cross-references/Protocols.ql b/swift/ql/integration-tests/posix/cross-references/Protocols.ql
index 521dfeee7053..cde35a03d5f7 100644
--- a/swift/ql/integration-tests/posix/cross-references/Protocols.ql
+++ b/swift/ql/integration-tests/posix/cross-references/Protocols.ql
@@ -1,5 +1,7 @@
 import swift
 
 from ProtocolDecl d
-where d.getLocation().getFile().getBaseName() != "Package.swift"
+where
+  d.getLocation().getFile().getBaseName() != "Package.swift" and
+  exists(d.getLocation().getFile().getRelativePath())
 select d
diff --git a/swift/ql/integration-tests/posix/cross-references/Structs.ql b/swift/ql/integration-tests/posix/cross-references/Structs.ql
index d746e92752ed..6b8dd3556bdb 100644
--- a/swift/ql/integration-tests/posix/cross-references/Structs.ql
+++ b/swift/ql/integration-tests/posix/cross-references/Structs.ql
@@ -1,5 +1,7 @@
 import swift
 
 from StructDecl d
-where d.getLocation().getFile().getBaseName() != "Package.swift"
+where
+  d.getLocation().getFile().getBaseName() != "Package.swift" and
+  exists(d.getLocation().getFile().getRelativePath())
 select d
diff --git a/swift/ql/integration-tests/posix/cross-references/VarDecls.ql b/swift/ql/integration-tests/posix/cross-references/VarDecls.ql
index 9d227acd4722..cdaa7d588981 100644
--- a/swift/ql/integration-tests/posix/cross-references/VarDecls.ql
+++ b/swift/ql/integration-tests/posix/cross-references/VarDecls.ql
@@ -1,5 +1,7 @@
 import swift
 
 from VarDecl d
-where d.getLocation().getFile().getBaseName() != "Package.swift"
+where
+  d.getLocation().getFile().getBaseName() != "Package.swift" and
+  exists(d.getLocation().getFile().getRelativePath())
 select d
diff --git a/swift/ql/integration-tests/posix/frontend-invocations/Files.ql b/swift/ql/integration-tests/posix/frontend-invocations/Files.ql
index 9782ea4ce0bd..0ef878215647 100644
--- a/swift/ql/integration-tests/posix/frontend-invocations/Files.ql
+++ b/swift/ql/integration-tests/posix/frontend-invocations/Files.ql
@@ -1,4 +1,5 @@
 import swift
 
 from File f
+where exists(f.getRelativePath()) or f instanceof UnknownFile
 select f
diff --git a/swift/ql/integration-tests/posix/hello-world/test.ql b/swift/ql/integration-tests/posix/hello-world/test.ql
index 9782ea4ce0bd..0ef878215647 100644
--- a/swift/ql/integration-tests/posix/hello-world/test.ql
+++ b/swift/ql/integration-tests/posix/hello-world/test.ql
@@ -1,4 +1,5 @@
 import swift
 
 from File f
+where exists(f.getRelativePath()) or f instanceof UnknownFile
 select f
diff --git a/swift/ql/integration-tests/posix/symlinks/Files.ql b/swift/ql/integration-tests/posix/symlinks/Files.ql
index 9782ea4ce0bd..0ef878215647 100644
--- a/swift/ql/integration-tests/posix/symlinks/Files.ql
+++ b/swift/ql/integration-tests/posix/symlinks/Files.ql
@@ -1,4 +1,5 @@
 import swift
 
 from File f
+where exists(f.getRelativePath()) or f instanceof UnknownFile
 select f