Yes, this happened to me again today (March, 2020).
'79 Pirates had runners on first and second with two out in the sixth inning.
Madlock’s card result was a 6 – a double.
Foli scored from second and Stargell (the (S) runner at first) was thrown out at the plate. End of inning.
Except, I didn’t notice at first that the Foli run had never counted.
Two innings later, when the Pirates should be winning 5-4, I realize that the GO game score is actually 4-4.
Needless to say, it messed up the rest of the game, as Pittsburgh “lost” 5-4 in the bottom of the ninth.
** Edited to add: GO Support notified of issue **