Yes, this is a good idea. But firstly, the built-in route planner should be able to take the security of systems as a parameter for trip calculations.
I really do not want to plan my routes manually, it is really boring.
Yet, if you get your way, you deny other players from planning their routes for better chance of success, which is valid gameplay, which encourages thinking before acting.
On the plus side, your flight won't be so boring if you encounter a lot of hostility.
Does sound like you want the game to play itself for yourself...so why even try to engage with it?
Games don't exist to cater for you, you have to play them to understand them and get rewards for having done so.
Common ground would be the ability to place waypoints so things aren't so tiresome but done by the player, not by anything else.
Player risks, maybe makes a bad decision, then bad things may happen.
Players that keep it safe and far less likely to die.
Should always be about player choice.