Haha unfortunately it's all about how a girl perceives it. I agree with you, I don't tend to chase after girls who don't communicate, are passive-aggressive or get turned off by little shit like that. However, it's good for future reference if you're ever talking to a girl who's very attractive and who you hit it off with, except for a little thing like that. You wouldn't want that to be the reason you don't get to at least see where it goes.

It did sound a little aggressive from an outsider's perspective so what you can do in the future is a soft call out like "you don't seem confident.." or "if you're too nervous, I understand"

Again, unfortunately, you can rarely be your direct self and get to the root of the issue. I'm very much the same where if I have a problem or think there's some sort of problem, I just ask and think nothing of it but people can take that as an attack, sometimes inadvertently (often combined with other factors in the moment, she's stressed, that time of the month, family, school etc.).

Regardless, wait 3-4 days and say something like "Not a trick question I swear;)" or "Thinking hard I see.." ALSO -> do not be afraid to reset the conversation a little and ask her how she is/re soft close, it can be very helpful to take a couple of steps back to recalibrate the convo to ask her out on a high note so to speak.

Anyway, lmk how it goes! Hope this helps bro.