declare remaining missing deps + drop dead hermest from irmin

Last 6 misses from monopam lint, fixed by hand:

- irmin: drop [hermest] from lib/atproto/dune — declared in
(libraries ...) but no .ml in lib/atproto opens or references it,
it's a leftover. Also add [mst] (real, used by Mst.store) and
[(nox-memtrace :with-test)] (test/bench/dune).
- ocaml-aos: [(fmt :with-test)] — fuzz/dune uses fmt.
- ocaml-cdm: [(alcobar :with-test)] — fuzz/dune.
- ocaml-cgr: [(sgp4 :with-test)] — example/dune uses sgp4.

monopam lint now reports 0 missing deps across 182 packages.