Hi,
This may happen as well when there is a tritone sub of V. For instance in Autumn Leaves "G-7 Gb7" for a non transposing instrument becomes "E-7 D#7" for a Eb instrument. As tritone substitutions of V are quite common, it would be nice if they appear differently for a transposing instrument ("E-7 Eb7" on the above example).
Best,
Lucas