It should be OK. It should be no different than having a burnt out bulb with the others still lit.
The current to the remaining bulbs will be slightly higher. Therefore, they will be slightly brighter although it probably won't be noticeable. This will make the lifespan of the bulbs slightly shorter, but you will probably end up replacing them way before that.
If you remove too many LEDs, the current will eventually exceed the limit of the LED and they will burn out. You will most likely have to remove several LEDs to get to this point.
There should not be a safety issue as long as you do a good job on the repair. Make sure there are no exposed wires and that they can't be pulled apart easily.