-German bots abandon tanks halfway to closest flag (from German base) on El Alamein.
I think some of these may be map specific, besides the ones you have specifically mentioned are related to certain maps
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-The PZII is used well by bots on Tobruk, but is used pretty ineffectively on other maps.
-The Stuka needs some work, as it is meant to simulate actual dive bombing..... unfortunetly the bots seem unable to pull out of the dive 90% of the time.
-The tank ramming of flag posts should be fairly easy to fix with some work on pathing.
-The bots never run out of ammo, They can even auto supply a tank once they enter one depleted of ammo. I think this one should stay, as bots will never figure out they need to resupply.
-Some bot squad members will follow your orders on some maps (Allied side on Luffite), but the commander's orders supersedes yours with bots. If you re-issue a command they will confirm or tell you to bugger off, but will then migrate towards the commander's target anyways. This is one I really hope there is a solution for, as long as processors don't take too big a hit.
Whether we will ever see bots responding to orders like "wait up, I need a ride!".... don't hold your breath.
-I think the bot commander supply and arty will probably make a return. It was definetly affected by the 1.5 patch.
-I believe the stair mapping will always be a problem for bots if they are too steep.