That list is mostly just nitpicking. It feels like the author had a few issues with FFIX and later decided to sit down and search for more things he could dislike.

Some points aren't something I consider flaws (Ability system, Trance not happening all the time), other points are definitely not exclusive to Final Fantasy IX but instead consistent with many of the other games (monotone battle music, useless eidolons, redundant characters), and some points are just completely false. (FFVII only has 6 more FMV's than FFIX, Quina not being funny )