I do not blame Filoni for the discrepancies between The Clone Wars and the Clone Wars Multimedia Project. However, I do believe that spending too much time around George Lucas may have negatively influenced him.
Initially, Filoni wanted to tell a completely different story, centered on an entirely original cast of characters who would embark on adventures at the edges of the galaxy, far removed from major figures like Anakin and Obi-Wan. He did not want to heavily involve the main characters because, at the start, he cared about continuity and sought to avoid contradicting the Republic comics and other materials from the Multimedia Project. However, it seems George Lucas was not fond of this idea and insisted that the series focus on the main characters from the films, which inevitably led to contradictions with the previously published material. So, I do not blame Filoni for these inconsistencies, because in the beginning, he wanted to create an entirely new story and genuinely tried to respect the existing Canon.
That said, I am also convinced that over time, being in close proximity to George Lucas altered his perception of the franchise. While he initially seemed interested in preserving continuity and avoiding major contradictions, spending so much time with someone who famously stated that “continuity is for wimps” must have changed the way he views Star Wars. It turned him into someone who, much like his mentor, has little regard for maintaining consistency within the universe, which explains his disregard for any previously established continuity (weather it is Legends or Canon) in subsequent years.
