diff --git a/pkg/cli/codemod_github_app.go b/pkg/cli/codemod_github_app.go
index 05217577c14..2214a33d548 100644
--- a/pkg/cli/codemod_github_app.go
+++ b/pkg/cli/codemod_github_app.go
@@ -37,6 +37,7 @@ func hasDeprecatedAppField(frontmatter map[string]any) bool {
 			if githubAny, hasGitHub := toolsMap["github"]; hasGitHub {
 				if githubMap, ok := githubAny.(map[string]any); ok {
 					if _, hasApp := githubMap["app"]; hasApp {
+						githubAppCodemodLog.Print("Deprecated 'app' field found in tools.github")
 						return true
 					}
 				}
@@ -48,6 +49,7 @@ func hasDeprecatedAppField(frontmatter map[string]any) bool {
 	if soAny, hasSO := frontmatter["safe-outputs"]; hasSO {
 		if soMap, ok := soAny.(map[string]any); ok {
 			if _, hasApp := soMap["app"]; hasApp {
+				githubAppCodemodLog.Print("Deprecated 'app' field found in safe-outputs")
 				return true
 			}
 		}
@@ -57,6 +59,7 @@ func hasDeprecatedAppField(frontmatter map[string]any) bool {
 	if checkoutAny, hasCheckout := frontmatter["checkout"]; hasCheckout {
 		if checkoutMap, ok := checkoutAny.(map[string]any); ok {
 			if _, hasApp := checkoutMap["app"]; hasApp {
+				githubAppCodemodLog.Print("Deprecated 'app' field found in checkout")
 				return true
 			}
 		}
@@ -64,6 +67,7 @@ func hasDeprecatedAppField(frontmatter map[string]any) bool {
 			for _, item := range checkoutArr {
 				if itemMap, ok := item.(map[string]any); ok {
 					if _, hasApp := itemMap["app"]; hasApp {
+						githubAppCodemodLog.Print("Deprecated 'app' field found in checkout array item")
 						return true
 					}
 				}
diff --git a/pkg/workflow/compiler_yaml_ai_execution.go b/pkg/workflow/compiler_yaml_ai_execution.go
index c0ac972ff18..1c0cf107abe 100644
--- a/pkg/workflow/compiler_yaml_ai_execution.go
+++ b/pkg/workflow/compiler_yaml_ai_execution.go
@@ -9,6 +9,7 @@ import (
 func (c *Compiler) generateEngineExecutionSteps(yaml *strings.Builder, data *WorkflowData, engine CodingAgentEngine, logFile string) {
 
 	steps := engine.GetExecutionSteps(data, logFile)
+	compilerYamlLog.Printf("Generating engine execution steps: engine=%s, steps=%d", engine.GetID(), len(steps))
 
 	for _, step := range steps {
 		for _, line := range step {
diff --git a/pkg/workflow/github_tool_to_toolset.go b/pkg/workflow/github_tool_to_toolset.go
index 0ae9371a7e3..ce489c9b5d6 100644
--- a/pkg/workflow/github_tool_to_toolset.go
+++ b/pkg/workflow/github_tool_to_toolset.go
@@ -22,6 +22,7 @@ func init() {
 	if err := json.Unmarshal(githubToolToToolsetJSON, &GitHubToolToToolsetMap); err != nil {
 		panic("failed to load GitHub tool to toolset mapping: " + err.Error())
 	}
+	githubToolToToolsetLog.Printf("Loaded GitHub tool-to-toolset mapping: %d entries", len(GitHubToolToToolsetMap))
 }
 
 // GitHubToolToToolsetMap is the last declaration in this file; ValidateGitHubToolsAgainstToolsets
diff --git a/pkg/workflow/lock_schema.go b/pkg/workflow/lock_schema.go
index d45d1b39f9b..1e5335c74f1 100644
--- a/pkg/workflow/lock_schema.go
+++ b/pkg/workflow/lock_schema.go
@@ -87,6 +87,8 @@ func formatSupportedVersions() string {
 // GenerateLockMetadata creates a LockMetadata struct for embedding in lock files
 // For release builds, the compiler version is included in the metadata
 func GenerateLockMetadata(frontmatterHash string, stopTime string, strict bool) *LockMetadata {
+	lockSchemaLog.Printf("Generating lock metadata: schema=%s, strict=%t, hasStopTime=%t", LockSchemaV2, strict, stopTime != "")
+
 	metadata := &LockMetadata{
 		SchemaVersion:   LockSchemaV2,
 		FrontmatterHash: frontmatterHash,
@@ -97,6 +99,7 @@ func GenerateLockMetadata(frontmatterHash string, stopTime string, strict bool)
 	// Include compiler version only for release builds
 	if IsRelease() {
 		metadata.CompilerVersion = GetVersion()
+		lockSchemaLog.Printf("Including compiler version in lock metadata: %s", metadata.CompilerVersion)
 	}
 
 	return metadata
diff --git a/pkg/workflow/safe_outputs_config_helpers.go b/pkg/workflow/safe_outputs_config_helpers.go
index c3a7958b383..e2a2b2cb3ad 100644
--- a/pkg/workflow/safe_outputs_config_helpers.go
+++ b/pkg/workflow/safe_outputs_config_helpers.go
@@ -199,6 +199,9 @@ func generateHideCommentConfig(max *string, defaultMax int, allowedReasons []str
 // - "allowed_repos" uses underscore to match JavaScript handler expectations (see repo_helpers.cjs)
 // This inconsistency is intentional to maintain compatibility with existing handler code.
 func generateTargetConfigWithRepos(targetConfig SafeOutputTargetConfig, max *string, defaultMax int, additionalFields map[string]any) map[string]any {
+	safeOutputsConfigGenLog.Printf("Generating target config: target=%s, targetRepo=%s, allowedReposCount=%d, additionalFieldsCount=%d",
+		targetConfig.Target, targetConfig.TargetRepoSlug, len(targetConfig.AllowedRepos), len(additionalFields))
+
 	config := generateMaxConfig(max, defaultMax)
 
 	// Add target if specified