I don't use KA on raids, but I looked at the kissassist.mac file out of curiosity after reading this thread and saw the following code pertaining to it:
Lines 342 through 343:
INI:
/if (${ChainPull}!=2) {
/if (!${IAmABard} && ${Me.Casting.ID}) /call CheckStuckGems
And then Line 1886 (checks for either gems stuck or there is a spell in book but it's not memmed)
Then lastly the sub/function that starts on line 13743
INI:
| SUB: Check and Fix Stuck Gems
| ----------------------------------------------------------------------------
Sub CheckStuckGems
/if (${Window[CastingWindow].Open} || ${Me.Invis}) /return
/if (${Me.AltAbilityReady[origin]}) {
/alt act ${Me.AltAbility[origin].ID}
/delay 50 ${Window[CastingWindow].Open}
/stopcast
/delay 10
} else {
/echo Origin AA not ready.
/delay 20
}
/return
Pretty sure this is why. Looking at this piece of code, KA will try to detect stuck gems in two places via /call CheckStuckGems. It's then trying to use use an AA ability (origin in this case since it's a universal AA applied to all classes) if it thinks you have stuck gems.. However, it seems like the /stopcast portion is not working for some people and/or maybe it's not really registering if people's gems are all entirely greyed out. That part I am unsure as to how it's affecting you. However, based on my experience just actually raiding (and not running KA), it may get laggy where your gems are greyed out for about a second or two. KA might be confusing this with gems just being perma-stuck which although is a similar matter/issue, it's still a separate one.
But with that being said, there should really be a fix to disable it if one is not available. I can see this causing a world of problems especially if someone is running KA with unsuspecting players in an instanced raid and then they all of a sudden see you casting origin over and over. If there isn't a way to turn off /call CheckStuckGems which is used in various parts of the KA file, then a temporary workaround may be to just comment out line 343 and line 1886. Or replace the reference to the origin ability with something else if you still want to try and use an ability (the latter I don't recommend since if you're running multiple toons and one doesn't have the specific AA, then it will probably cause an error).
Edit: I also just thought about something. If some people are claiming that they still ended up gating to the home-city, then maybe there is a conflict if castinginterrupt is set off in the individual player ini. Not sure, but just spitting ideas out loud. This is worthy of you cross-posting so the devs maintaining KA can have a look, if you care to look into this further:
https://www.redguides.com/community/threads/kissassist.61791/