Found a bug??? (Not sure if I should post it in the drones++ sub-forum instead)
Ships with a lot of auto-loaders and auto-reactors will start to mess with saving and warping.
What seems to be happening is that every time the auto-loaders "load energy", the game treats that as being attacked and very very shortly disables saving and warping.
Try building a ship with a lot of loaders and reactors and disable the auto warp option then try warping, once the warp is at 100% you'll notice it turning on and off in quick succession.
The real problem starts when there is enough stuff that the disabled time is continuous and you can't save or warp anymore even with auto warp.
It also happens sometimes after playing for a while even in small ships, it's as if the "disabled time" are slowly stacking. (removing the parts doesn't fix it but load the last save and selling the repurchasing the ship sometimes does)