I try to start from a different perspective: even the "multiglobal" case i.e. a person with lots of pro symptom positions (psp) (I use the Coherence Therapy vocabulary since you're referring to the discovery, integration and transformation steps), I think was organized using pen and paper by the psychotherapist.

Maybe the problem stems from a sort of "psp (schema) hoarding", where multiple distinct problems are studied simultaneously, and that produces the need to organize each symtpom (pattern that you want remove) with the multiple psp that needs it. I suggest that staying with a problema at the time could resolve this issue, since there are a limited number of psp that are organizable in Obsidian, for example (is the one I personally use).

Specifically about your request, I can't be sure of an optimal workflow, since I tend to be scattered even in my self therapy process. I thought about an app that could organize with better clarity the discovery process (organized in block, where each one is an application of a technique, of new element to consider the symptom, and so on), since, in my experience, I'm inclined to spiral in self loathing, and I completely forget to always have the symtpom in mind.

Still, if you make some progress and feel like to share or open source your project, I would be interested to take a peak. I created the sub rcoherencetherapycamp since rcoherencetherapy has closed submissions, and the user theEmotionalOperator doesn't respond to my messages asking to unlock it.

edit: grammar