I found a Fix!
1: Load both “Space Age” and only “Bob’s Logistics” with its dependencies
2: Under mod options, turn off "Transport Belt Overhaul" and restart, this will cause both types of Turbo Belts to load in a single save
3: Start any save, preferably a sandbox save to unlock everything
4: Make an Upgrade Planner converting Bob’s “Purple Turbos” to Space Age’s “Green Turbos”, and apply it to all the affected blueprints (I moved my library into a single book and converted it in one go).
5: Unload “Bob’s Logistics” and its dependencies
6: Profit!
Edit: It's a Partial fix, it doesn't change the recipes within the blueprint. The only way to change that is to place the blueprint, change the machines to the correct production, then rescan the blueprint.