diff --git a/IMPLEMENTATION_PLAN.md b/IMPLEMENTATION_PLAN.md
index a91bc76..e2afe08 100644
--- a/IMPLEMENTATION_PLAN.md
+++ b/IMPLEMENTATION_PLAN.md
@@ -15,9 +15,6 @@ Phase 1 focuses on modernizing Ralph's CLI integration with Claude Code, includi
 | Issue | Title | Priority | Status |
 |-------|-------|----------|--------|
 | #51 | Phase 1.5: Implement session expiration for .claude_session_id | P2 | Open |
-| #65 | Phase 1.8: Fix timeout command not found on MacOS | P2 | Open |
-| #44 | Phase 1.6: Stream Claude output to log file in real-time | P3 | Open |
-| #54 | Phase 1.7: Support custom API base / proxy configuration | P3 | Open |
 | #24 | Phase 1.9: Create TESTING.md documentation | P3 | Open |
 | #25 | Phase 1.10: Create CONTRIBUTING.md guide | P3 | Open |
 | #26 | Phase 1.11: Update README with testing instructions | P3 | Open |
@@ -57,7 +54,6 @@ Add configuration file support, infrastructure features, and advanced functional
 | #21 | Phase 3.7: Implement metrics and analytics | P3 | Open |
 | #22 | Phase 3.8: Implement notification system | P3 | Open |
 | #23 | Phase 3.9: Implement backup and rollback system | P3 | Open |
-| #64 | Phase 3.10: Monorepo support and .ralphrc enhancements | P3 | Open |
 
 ---
 
diff --git a/IMPLEMENTATION_STATUS.md b/IMPLEMENTATION_STATUS.md
index 70629cd..838e9e6 100644
--- a/IMPLEMENTATION_STATUS.md
+++ b/IMPLEMENTATION_STATUS.md
@@ -62,9 +62,6 @@
 
 **Remaining**:
 - [ ] #51 - Session expiration for .claude_session_id (P2)
-- [ ] #65 - Fix timeout command on MacOS (P2)
-- [ ] #44 - Stream Claude output to log file (P3)
-- [ ] #54 - Custom API base / proxy configuration (P3)
 - [ ] #24 - Create TESTING.md documentation (P3)
 - [ ] #25 - Create CONTRIBUTING.md guide (P3)
 - [ ] #26 - Update README with testing instructions (P3)
@@ -88,7 +85,6 @@
 - [ ] #21 - Implement metrics and analytics (P3)
 - [ ] #22 - Implement notification system (P3)
 - [ ] #23 - Implement backup and rollback system (P3)
-- [ ] #64 - Monorepo support and .ralphrc enhancements (P3)
 
 ### Phase 4: Validation Testing (0% Complete)
 
@@ -203,7 +199,6 @@
 | Issue | Phase | Title |
 |-------|-------|-------|
 | #51 | 1.5 | Session expiration for .claude_session_id |
-| #65 | 1.8 | Fix timeout command on MacOS |
 | #32 | 2.1 | Create Agent SDK proof of concept |
 | #33 | 2.2 | Define custom tools for Agent SDK |
 | #34 | 2.3 | Implement hybrid CLI/SDK architecture |
@@ -220,8 +215,6 @@
 ### P3 (Low - Nice to have)
 | Issue | Phase | Title |
 |-------|-------|-------|
-| #44 | 1.6 | Stream Claude output to log file |
-| #54 | 1.7 | Custom API base / proxy configuration |
 | #24 | 1.9 | Create TESTING.md documentation |
 | #25 | 1.10 | Create CONTRIBUTING.md guide |
 | #26 | 1.11 | Update README with testing instructions |
@@ -230,7 +223,6 @@
 | #21 | 3.7 | Implement metrics and analytics |
 | #22 | 3.8 | Implement notification system |
 | #23 | 3.9 | Implement backup and rollback system |
-| #64 | 3.10 | Monorepo support and .ralphrc enhancements |
 | #39 | 4.1 | Implement CLI enhancement tests |
 | #40 | 4.2 | Implement SDK integration tests |
 | #41 | 4.3 | Implement backward compatibility tests |
@@ -259,9 +251,9 @@
 
 | Category | Count |
 |----------|-------|
-| Total Open Issues | 40 |
-| P2 Issues | 14 |
-| P3 Issues | 15 |
+| Total Open Issues | 36 |
+| P2 Issues | 13 |
+| P3 Issues | 12 |
 | P4 Issues | 13 |
 | Closed Issues | 20 |
 | Total Tests | 276 |