Regarding the mount there are workarounds. Trion did it right with RIFT.
CE owners get a mount, quite common feature. It doesn't freely upgrade as you level up: it actually matches the speed of your best mount which means that you still need to spend money for a better speed. It is fair for everyone, CE owners still have to pay the same amount than regular players to get the epic speed but they still can use their CE mount.
It's the same issue with the crystal, there should be a way to turn it to a vendor and pay for a better version. On top of that to remove my CE crystal from my first pistol in order to get it back I had to pay 200 credits (which is a lot at a low lvl), nice move, thanks I guess?
That's the point: everything we get becomes obsolete with no possibility to upgrade. No one is asking for free upgrades, we are just asking for upgrades.
In the end, all my CE goodies remain in my lock unused since it is taking room in my inventory (this also is an issue). The only thing that will be put to use is my vehicle.