It is obvious from Gemara and Rashi that they had some differences. Sfardim, Teimanim and Ashkenazim have some differences, too. However, we would never change a Sefer on the basis of a research.
Also, although our Sefer has a ‘Succah’ with the Vav, we still Pasken like the Gemara that learns from the fact that the word does not have a Vav.
The idea is that it is Behashgacha that it turned out this way and we look at both as correct.