Jenny,
You actually seem like a nice, normal physicist! :-) Actually, I shouldn't talk; there are lots of very nice, but pretty weird chemists and biochemists. But, the nice part is what counts, I guess!
I know what you mean about running around asking what is charge and what is mass. It took me many years to understand how ATP actually provides energy to things in the cell and to visualize things in terms of molecules moving around and bouncing into each other. That's been real helpful for me, at least, in trying to understand all this stuff. But, there's a long way to go! Your punk rock astrophysicist prof. was probably right!
I agree that taking on being and "isness" is pretty hard, but I don't think it's insoluble. I think humans can figure it out, but we can't give up just because it seems hard. It's like that famous quote about the surest way to success is to try just one more time. If you're really bored sometime, my own views on this are at my last FQXi essay (analog vs. digital) and at my website at:
sites.google.com/site/ralphthewebsite (3rd link down for the why something rather than nothing stuff).
If you've eaten your carrots, and your eyesight is good, my current essay is at:
http://fqxi.org/data/essay-contest-files/Granet_fqxiessay2013final.pdf
Unfortunately, it came out as real small print even though it looked fine when I was typing it on my computer. But, I used the computer's text editor so that's probably why. Any comments you have would be great!
I bet you'll be a great physicist because you can already see why it's worthwhile trying to understand physical mechanisms. You're already way beyond many of the full professors on that! See you!
Roger