Those huge Mundorf film caps and all the associated wiring aren't doing you any favours for starters (think lead / parasitic inductance).
You can safely remove C102 / C102 and jumper over the pads with a wire link. I would also tend to remove the 2 x Mundorf 560uF film caps from C110 and C210 and replace them with a 6.3V / 1000uF Nichicon MUSE non polar cap (or any other sensibly sized non polar electrolytic).
Before saying any more I have two questions:
1: How long was your V2 working for with those parts installed?
2: Is it totally dead or has only one channel gone? Please explain:
I, personally, have found that between 15,000 - 22,000uF on the PSU is the sweet spot. I haven't tried 47,000uF (in total) because that amount of capacitance won't fit inside a standard X-CAN V2 enclosure...... I doubt the capacitance is causing your problem. I would go "99%" with it being a broken pad to trace connection somewhere..... can you take some better (higher resolution) photos of what's going on UNDER both boards? The photos you've uploaded are pretty murky, try to get some good ones taken and I'll see if there's anything obvious that's wrong.
Have you checked the obvious? The headphone socket is a well known problem area..... it is not physically connected to the fascia and the solder joints DO fracture / the naked eye won't see the break....... Try resoldering the headphone pads for starters.
I tend to keep things simple (like parts that will fit into an V2 enclosure whilst still be a MASSIVE upgrade in the SQ dept.) but good on you for experimenting "outwith" the confines of the stock X-CAN enclosure, respect to you for that.