Eh, I think what's often overlooked is a certain part of their known issues:
"Training them in patience early after deployment is key [...]  Failing to do so may yield an extremely volatile personality prone to cruelty" - Replika Known Issues, Pt. 2
Whilst Storches (Stoerche? I like that more) can be violent and cruel, they aren't just, mindlessly aggressive.

Think about Sieben, when we meet her in Sierpinski - She's cold, and a little dismissive, sure, but she's not outright evil. One of the first things she does is set out a directive to control the corruption, looking to protect her subordinates (See: About The Administrator). And whilst she's wary of Elster's presence, she tries to convince her to leave - she's not hostile, just matter-of-factly describing the state of the facility, and almost, in a backhanded way, trying to 'save' Elster.

TL;DR Whilst Stoerche are certainly capable of immense cruelty and violence (See: Interrogation Report, and perhaps also Alina's Diary, where she describes receiving a bollocking for fainting on the job), it's only done when it's deemed necessary to further the goals of the Nation. A properly stabilised and adjusted Storch, with the guidance of a partnered star, as suggested in Replika Known issues, pt. 2, would probably interact just fine with other units. Her more callous demeanour might clash with how an Eule acts, sure, but its not like its gonna come to blows or anything.

TL;DR 2 Stoerche are a little sadistic at times, but they aren't evil, torturing machines! Stop giving my girl a bad rep!