chore: advance three pins their refs had already passed

The refs carried paths from a revision newer than source_commit, so the
profiles described two trees at once. rvvm is the plain case: the file
is src/rvvm.c at the pin and src/core/rvvm.c at the revision its refs
were written against, and citing the second against the first reads as a
file that vanished.

The diagnostic added for this named all three in one pass, and each cost
one line. rvvm 3 refs, boom3 4, applewin 1, all anchored.

emulators/applewin.yml

@@ -4,7 +4,7 @@ core_classification: community_fork
 source: "https://github.com/audetto/AppleWin"
 upstream: "https://github.com/AppleWin/AppleWin"
 profiled_date: "2026-03-23"
-source_commit: "599e81d07f4aeceec17c899213584d719c395718"
+source_commit: "d495cfe427358d6b1f185a60bc2b3a8c7c5e8107"
 core_version: "1.31.0.1"
 display_name: "Apple II (AppleWin)"
 cores:

emulators/boom3.yml

@@ -4,7 +4,7 @@ core_classification: game_engine
 source: "https://github.com/libretro/boom3"
 upstream: "https://github.com/dhewm/dhewm3"
 profiled_date: "2026-03-23"
-source_commit: "b810234ea1e3b498fa6ff5f51efaaa9433b21060"
+source_commit: "132dfddbc216af8b5196a61e815219b531f7c1b4"
 core_version: "git"
 display_name: "Doom 3 (boom3)"
 cores: [boom3, boom3_xp]

emulators/rvvm.yml

@@ -4,7 +4,7 @@ core_classification: official_port
 source: "https://github.com/LekKit/RVVM"
 upstream: "https://github.com/LekKit/RVVM"
 profiled_date: "2026-03-25"
-source_commit: "7195d47431b1f9643a61a306bed6650571e6ecca"
+source_commit: "a662c0edd507b4e04f20d44490c514b683007ae7"
 core_version: "0.6-git"
 display_name: "RVVM"
 cores: [rvvm]