MSFS2024 control binding interface is confused by multiple devices

Do you have the same issue if you follow the OP’s steps to reproduce it?
Yes

New SU5 Beta release now recognises Vjoy as a Tobii. I use Vjoy for my pedal input for rudder which uses a merged axis that MSFS 2024 cannot achieve. The Sim now since the update recognises Vjoy as a Tobii device. And affects the functionality of Vjoy as well.

Nice to see this bug was reported months ago yet the developers have implemented it anyway!

This will affect thousands of people who use Vjoy for multipe flight controllers so need to ensure that this is not implemented in the full SU5 release otherwise the Sim will be broken for many users who have spent a lot of money on peripherals for realism.

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