Wow, lots of medical terminology there. I have worked in the medical field before, so I understand most of what you're saying here. BUT I have no idea what could be wrong! I get UTI's and kidney infections a lot myself, since I have bilateral duplex kidneys and ureters with a right ureterocele. But anytime I have an infection, I haven't had a problem with SOB or hypotension.
I had some periventricular tachycardia when I was pregnant, that spontaneously resolved after I delivered. Other than that, no heart problems myself.
Actually, earlier this week I had some feelings of weakness and heart palpitations, and feeling SOB with exertion. It felt a lot like when I was tachycardic, feeling winded and tired and out of energy all the time. My guess was it was because I had been lax on taking my iron supplement. I am nursing so I think baby is taking some of my reserves. I tend towards slight anemia and the symptoms went away after I restarted the iron. So I concluded that that must have been the problem. I would have called the doc and asked, but it was Memorial weekend, and the sx went away by the time they reopened. I don't know if you had your iron looked at, but, heck, who knows, maybe it might help. I'm sure they did a CBC and all that, but I'm just throwing out ideas...
With the memory problems you mentioned, that makes me think "migraine." My husband gets migraines/cluster HA's, and sometimes he will have them with no pain at all, but will have the neurologic sx's, such as memory problems (he couldn't remember my name), visual disturbances, and such. I have heard people talk about pre-migraine symptoms such as smelling unusual smells or being sensitive to smells, and food tasting funny. It's a stretch, but I wonder if what you're talking about is related at all? Maybe con-comitant with the kidney infection? I'm not sure.
Perhaps the Cipro didn't completely wipe out the infection, and that's why you are getting flank pain again. Maybe check another UA and have them see if it grows any organisms.
My best advice: second opinion! Maybe see a urologist/nephrologist or just a your GP. Pursue an answer, if you feel like you're still not OK!
My mom had paroxysmal atrial fibrillation that came and went throughout her life from her 20's on up, and they just figured it out last year. She's 53. She would have these wierd symptoms and feel like she might black out, and then be ok again for awhile. Her GP kept telling her she was probably just having a panick attack. Finally, finally, it got bad enough that they caught it on a 12-lead in the ER. I say all that to say, the symptoms may be unexplainable at first, but that doesn't mean there's nothing going on! Pursue answers until you are satisfied.