Are there more than one editions of The Torah Scroll and do these editions contain the two spelling differences? I ask this because I see the differences of the Hebrew versions on the Internet, but I don’t believe they are any substitute for the Torah Scroll used today in the synagogue.
Definitely not. All Torah scrolls today are exactly identical (otherwise they are not kosher and cannot be used to read even one word, and must be returned to the ark until corrected by a certified scribe!), except for the Yemenite ones which have a handful of alternative letters. By the way, see Breishit 5, where both ways of Vayehi/Vayehiu are totally acceptable.