Okay. It was just a thought in case the locking situation was still bugging you. It sounds like it was just a painful adjustment, but now you're used to it. At least you know there's a solution out there to a problem that doesn't really exist for you anymore.
remote start works in a manual car with a clutch interlock. There's a special procedure. When you park the car, you leave it in neutral, release the clutch, apply the parking brake, release the brake pedal, then turn the car off and remove the key. The engine will continue to run. Then you get out of the car, and when you close the door, the engine will shut off. The car is then 'primed' and is ready to be turned on by the remote. If at any point you tap the brakes after turning the car off and removing the key, the engine will turn off and the system won't be primed anymore.
The biggest danger is if at some point after the car has been turned off, but before it is started, the shifter gets moved into gear. That being said, I owned a manual car with remote start (my '02 accent) and once I became used to the procedure, it became like second nature.