Quote:

It's worked fine for years.

It's just something you've done wrong.

The box says C

You choose D and tell it yes transpose the thing.

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Yes but one more step if your chords are correct and you change the key signature in the little box from C to what the song key is in reality then say no to transposing at this point. Now you have the correct key and the correct chords. Now do the transposing to a different key you require.

Best to always put the right key signature in the little box before entering the chords, notation etc. before transposing. If you forget you have to do it as above.

Cheers