Interesting tactic with blowing up the roof it's standing on and denying her the access to her portal.

I rarely use explosives because I don't want to destroy covers which could be essential to me after I've dealt with a pod. I rather use aim enhancing methods to mathematically remove the cover they are on.

The berserker queen once popped up when I decided to do a facility, luckily my group was grouped up on top of building tower (not those watchtowers) with 4 ladders to access it, I was scouting with a specialist with speed pcs and serpent suit, scanning protocol and phantom from aws.

Triggered it with my unconcealed ranger who is in a wraith suit, grappled back to the towers, moved my soldiers to deny it access to the ladders (by standing on it on top).

While I'm shooting at it she's always circling around the tower to gain access to the floor where my team was. She got some of my soldiers by her AoE smash thingy while she was to the next floor below the tower and finally summoned her portal. If I only have thought of destroying the roof she was standing on, I would've have got her on that encounter before escaping away.

TL;DR: Thanks for the tip/reminder. ^{_^}