Dear Miss Snark,
I have a small, nitwittish question regarding e-queries. (I know, Your Snarkiness does not deign to take e-queries, but let's take this hypothetically.) If I were to send an e-query and recieve a personalized rejection (as opposed to a form letter), would it ever be alright for me to toss the agent a short, quick, "I understand. Thank you again for your time"? Does that sound like you're trying to suck up to them, or is it just taken as a courtesy? Or is it completely ignored?
It's never out of line to thank someone for their time. Put "thank you" in the subject line so you don't get a form email back of course.
It's perfectly fine to NOT write a thank you as well. Every thing you don't send is one less thing to read and with the volume of email here (let alone at agencies that take e-queries) that's a good thing.
And for dogs sake don't ask questions along with the thank you (not that you would of course). That makes it NOT a thank you; that makes it a pita.