"Reject" is the wrong word. When you e-file, a "rejection" means the return failed a basic check of some kind (like, if you have form 8949, you must also have schedule D; or social security and birthdate matching). Once accepted, the tax facts in the return are separately evaluated.
For 843 is a generalized request for a refund of any tax, fee or penalty that is not an income tax. You file one form for the whole year (2022, 2023, or whatever) that lists all your claims for that year. It must be printed and filed by mail. Attach/provide a detailed explanation of each claim, and be sure to include any required documentation for each claim, based on the instructions.
The IRS should evaluate each claim on its own merits, as long as you provide a good explanation for each separate claim, with proper supporting proof.
