chore: recovery checkpoint - v3.0 API successfully recovered

CRITICAL CHECKPOINT - DO NOT PUSH TO GITHUB

Recovery Status:
- Successfully recovered brainy.ts from compiled JavaScript
- All core v3.0 API methods functional (add, get, update, delete, relate, find, etc.)
- Neural subsystem intact (562KB embedded patterns, NLP working)
- Augmentation pipeline operational (20+ augmentations)
- HNSW clustering system complete
- Triple Intelligence compiled (needs constructor fix)
- Test suite validates functionality

Changes preserved:
- 898 files with changes from last 3 days
- 144,475 insertions
- All augmentation improvements
- All test coverage enhancements
- Complete v3.0 feature set

This is a LOCAL checkpoint only - contains recovered work after corruption incident.
Created backup in .backups/brainy-full-20250910-151314.tar.gz

Branch: recovery-checkpoint-20250910-151433
Date: Wed Sep 10 03:18:04 PM PDT 2025

.recovery-workspace/dist-backup-20250910-141917/utils/metadataNamespace.d.ts

@@ -0,0 +1,113 @@
+/**
+ * Clean Metadata Architecture for Brainy 2.2
+ * No backward compatibility - doing it RIGHT from the start!
+ */
+export declare const BRAINY_NS: "_brainy";
+export declare const AUG_NS: "_augmentations";
+export declare const AUDIT_NS: "_audit";
+export declare const DELETED_FIELD: "_brainy.deleted";
+export declare const INDEXED_FIELD: "_brainy.indexed";
+export declare const VERSION_FIELD: "_brainy.version";
+/**
+ * Internal Brainy metadata structure
+ * These fields are ALWAYS present and indexed for O(1) access
+ */
+export interface BrainyInternalMetadata {
+    deleted: boolean;
+    indexed: boolean;
+    version: number;
+    created: number;
+    updated: number;
+    partition?: number;
+    domain?: string;
+    priority?: number;
+    ttl?: number;
+}
+/**
+ * Complete metadata structure with namespaces
+ */
+export interface NamespacedMetadata<T = any> {
+    [key: string]: any;
+    [BRAINY_NS]: BrainyInternalMetadata;
+    [AUG_NS]?: {
+        [augmentationName: string]: any;
+    };
+    [AUDIT_NS]?: Array<{
+        timestamp: number;
+        augmentation: string;
+        field: string;
+        oldValue: any;
+        newValue: any;
+    }>;
+}
+/**
+ * Create properly namespaced metadata
+ * This is called for EVERY noun/verb creation
+ */
+export declare function createNamespacedMetadata<T = any>(userMetadata?: T): NamespacedMetadata<T>;
+/**
+ * Update metadata while preserving namespaces
+ */
+export declare function updateNamespacedMetadata<T = any>(existing: NamespacedMetadata<T>, updates: Partial<T>): NamespacedMetadata<T>;
+/**
+ * Soft delete a noun (O(1) operation)
+ */
+export declare function markDeleted<T = any>(metadata: NamespacedMetadata<T>): NamespacedMetadata<T>;
+/**
+ * Restore a soft-deleted noun (O(1) operation)
+ */
+export declare function markRestored<T = any>(metadata: NamespacedMetadata<T>): NamespacedMetadata<T>;
+/**
+ * Check if a noun is deleted (O(1) check)
+ */
+export declare function isDeleted<T = any>(metadata: NamespacedMetadata<T>): boolean;
+/**
+ * Get user metadata without internal fields
+ * Used by augmentations to get clean user data
+ */
+export declare function getUserMetadata<T = any>(metadata: NamespacedMetadata<T>): T;
+/**
+ * Set augmentation data in isolated namespace
+ */
+export declare function setAugmentationData<T = any>(metadata: NamespacedMetadata<T>, augmentationName: string, data: any): NamespacedMetadata<T>;
+/**
+ * Add audit entry for tracking
+ */
+export declare function addAuditEntry<T = any>(metadata: NamespacedMetadata<T>, entry: {
+    augmentation: string;
+    field: string;
+    oldValue: any;
+    newValue: any;
+}): NamespacedMetadata<T>;
+/**
+ * INDEXING EXPLANATION:
+ *
+ * The MetadataIndex flattens nested objects into dot-notation keys:
+ *
+ * Input metadata:
+ * {
+ *   name: "Django",
+ *   _brainy: {
+ *     deleted: false,
+ *     indexed: true
+ *   }
+ * }
+ *
+ * Creates index entries:
+ * - "name" -> "django" -> Set([id1, id2...])
+ * - "_brainy.deleted" -> "false" -> Set([id1, id2...])  // O(1) lookup!
+ * - "_brainy.indexed" -> "true" -> Set([id1, id2...])
+ *
+ * Query: { "_brainy.deleted": false }
+ * Lookup: index["_brainy.deleted"]["false"] -> Set of IDs in O(1)
+ *
+ * This is why namespacing doesn't hurt performance - it's all flattened!
+ */
+/**
+ * Fields that should ALWAYS be indexed for O(1) access
+ */
+export declare const ALWAYS_INDEXED_FIELDS: ("_brainy.deleted" | "_brainy.indexed" | "_brainy.version")[];
+/**
+ * Fields that should use sorted index for O(log n) range queries
+ */
+export declare const SORTED_INDEX_FIELDS: string[];