Apply CLI overrides after typed decoding

internal/engine/history.go

@@ -42,8 +42,8 @@ func (c *retainedNodeCounter) add(root *document.Node) bool {
 
 // History applications borrow immutable policy-validated input trees. Metadata
 // records answer presence and origin queries; replay reconstructs value changes.
-// Replay reconciles with canonical decoding before domain resolution so both
-// contracts agree on the effective result without retaining a tree per field.
+// Replay reconciles with canonical decoding, applies supplied CLI contributions,
+// then records domain resolution without retaining a tree per field.
 type historyApplication struct {
 	layer           Layer
 	path            Path