diff --git a/CHANGELOG.md b/CHANGELOG.md
index 9b4cdc534..64137af18 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -10,7 +10,7 @@
 
 ##### Bug Fixes
 
-- None.
+- A clean build is no longer required when a file is deleted from the scanned project.
 
 ## 3.0.0 (2024-12-27)
 
diff --git a/Sources/Indexer/SourceFileCollector.swift b/Sources/Indexer/SourceFileCollector.swift
index 8df3b33c4..e6b793619 100644
--- a/Sources/Indexer/SourceFileCollector.swift
+++ b/Sources/Indexer/SourceFileCollector.swift
@@ -1,7 +1,6 @@
 import Configuration
 import Foundation
 import Logger
-import Shared
 import SourceGraph
 import SwiftIndexStore
 import SystemPackage
@@ -43,7 +42,8 @@ public struct SourceFileCollector {
 
                     if !isExcluded(file) {
                         guard file.exists else {
-                            throw PeripheryError.pathDoesNotExist(path: file.string)
+                            logger.debug("Source file does not exist: \(file.string)")
+                            return nil
                         }
 
                         let module = try indexStore.moduleName(for: unit)