Twice in 4 days my bindings have been dropped from the game on startup. I keep backups, so other than some copy/paste and a couple restarts not a huge problem.
Is anyone else having this issue lately?
Having issues on game launch sounds like some file sync issues to me. If you are on Steam, see my suggestions below. As for me? Despite keeping a copy of my bindings file on my desktop, I personally have never had my bindings get nerfed by a game update or whatever.
If you bought the game through Steam, but are using the ED Launcher to handle game updates, that might be part of your problem. I had a serious file corruption issue befall my ED application after the 2.4 update. I had been using the Launcher to handle the downloads, but when this method is used, there can be problems with the game files when Steam attempts to sync to an update it did not participate in.
On the advice of Frontier and Steam tech support, I no longer upgrade the game via the Launcher, but always use the Steam Client. No problems since. Going on 7 months now and no problems. In any event, you should defintely go into your Steam Client and VERIFY FILES for your ED installation immediately.
And when 3.03 drops later today, be sure to use the Steam Client to handle the upgrade.