Document that inputs might be mutated

src/config-utils.ts

@@ -1152,6 +1152,9 @@ export async function applyIncrementalAnalysisSettings(
 /**
  * Determines where to load the `UserConfig` for the CLI from and loads it.
  *
+ * @param inputs The Action inputs. The `inputConfigFile` value will be mutated
+ *               if a CodeQL Action-generated file should be used.
+ *
  * @returns The loaded `UserConfig`, which might be empty if no configuration
  *          was specified.
  */