fix(settings): preserve runtime contracts while restacking operation limits

Retain the original stack merge resolutions for runtime update modes, migrated guard exceptions, deadline ownership and boundary expectations on the merged settings base.

Co-authored-by: gensokyo-dev <342580529+gensokyo-dev@users.noreply.github.com>

tests/boundary/providers/kuna/kunaIndependentDecompileMcp.test.ts

@@ -84,8 +84,8 @@ it("runs a cold independent request without starting a project export", async ()
         limit: {
           setting: "kuna.function_timeout_ms",
           effective_value: 300,
-          effect: "immediate",
-          rea_restart_required: false,
+          update_mode: "runtime",
+          pending_restart: false,
           minimum: 1,
           maximum: 2147483647,
         },

tests/boundary/providers/kuna/kunaSingleFunctionRuns.test.ts

@@ -372,8 +372,8 @@ it("names the setting that owns a single-function deadline", async () => {
         limit: {
           setting: "kuna.function_timeout_ms",
           effective_value: 300,
-          effect: "immediate",
-          rea_restart_required: false,
+          update_mode: "runtime",
+          pending_restart: false,
         },
       },
     });

tests/boundary/providers/kuna/kunaStrings.test.ts

@@ -438,8 +438,8 @@ it.each([
               limit: {
                 setting: "kuna.project_timeout_ms",
                 effective_value: 500,
-                effect: "immediate",
-                rea_restart_required: false,
+                update_mode: "runtime",
+                pending_restart: false,
               },
             },
           });