Core question: Does Star Wars Zero Company count as Clone Wars canon? Yes. The game is set in the last stretch of the Clone Wars (around 19 BBY), runs in the background of the war rather than rewriting the big battles, and funnels every playthrough into the same canonical ending even if who lives or dies mid-campaign differs. Your run is your war story. The galaxy's history after the credits is the same.

1What "Canon" Means in This Game

The setup and ending are locked to official lore. Your middle can change. That is intentional. Developers have said: "All the stuff that happens in the middle, your experience will be different from mine, but in the end where it all wraps up, that's where it funnels into the Star Wars canon."

2Where It Sits on the Clone Wars Timeline

Decision point: Watch the Umbara arc first (TCW S4 E7-E10, "Darkness on Umbara" through "Carnage of Krell") if you care about clone and Umbaran squad drama. You do not need all 7 seasons of The Clone Wars to follow the plot. The game is written as a side-angle on the war, not a quiz on the show.

3How the Game Stays Canon While Being an XCOM-like

Your GoalWho to Bring on Late-War Missions
Want the "this is the Clone Wars" feelingTrick plus Tel-Rea on the late-war mission.
Want a clean headcanon squad photoDo not stack extra clones on the Order 66 mission in NG+.
Want the emotional Order 66 hitBring Trick on the squad when the chips fire.
Want to dodge the Order 66 sceneLeave Trick off the squad for that mission.

Common Mistakes to Avoid

4Play It as Canon: Quick Checklist