I wouldn't worry about it too much. Annie did the same thing when I tried to switch her to adult dog food. She picked out all the new food and left all the old stuff in the bowl
I think they just she the new stuff and felt like it was different (imagine that
) I tried to keep rationing out the new to the old for a couple more days to no avail... But she didn't seem to have any upset tummy problems.... So my guess would be... Keep up what you are doing... If you don't see your baby with any problems, I'm sure that there will be no problems with changing out completely. I have seen some members say they change their dogs food every few days cause they get tired of eating the same thing every day.... So just play it by ear