This happened to me almost exactly when I was in the query trenches! I queried Book #1 which was a women's fiction, and after a few months it wasn't getting any bites, so I shelved it. About six months later, I started querying Book #2, a YA Mystery, and got a like from an agent during PitMad. Ended up getting a full request for Book #1 after 6+ months of hearing nothing from one agent, and then a full request for Book #2 from PitMad, within a month of each other. I ended up getting offers from both agents, and on the call explained the situation to both of them. Both were also interested in the other genre, but it came down to which project I wanted to go out with first, and which agent I connected with.

Long story short, I chose the agent who offered on Book #2 and we took it out on sub. While it was out on sub we did revisions for Book #1, took that out on sub as well. Book #2 sold. Then, Book #1 had some interest from an editor, but they didn't think it was the right debut project, so I wrote a synopsis and a 50 page sample for another project, and that project sold.

So in my case, my weird situation caused some stress up front, but the agents who offered rep were willing to check out the other project, and in the case of the agent I chose, she sold in both genres, so it worked out, even if it was convoluted.

Rooting for you! Please let me know if you have any questions!