I recently bought an arduino leonardo.On the first sketch I uploaded it gave me the error messege that i attached as screenshot. The sketch rans fine, even the Keyboard/Mouse library runs fine, should i be worried?
It's not an error message. The fact that it's in red is confusing.
If you don't get an error message in the notification area (right bottom if IDE 2.x), it's not an error 
Should i be worried though, will it affect anything or is it just there?
Should i try to burn the bootloader or will it make things worse?
No need to be worried, it's just there.
No
No need, it will not make it worse and it will not help.
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Thank you vary much for the clear up!