Yes, but I only own and fly the Hornet. But I can try with one of the stand aircraft modules.
Edit: I tried with one of the default aircraft. Same issue. Default keybindings seems to work, the newly set one (in game) not.
I have attache the logfile.
Not really. It is installed but as I understand Helios the Control Center must run to be used by DCS. It is not running.
I don't know if the infomation helps. Before the controls issue appeared the game started like it had never been configured before. All settings like graphics, resolution etc. were on default. I am pretty new to DCS and I thought this might happen after an update, so I didn't care and just reconfigured everything. dcs.log.2.txt