clang-tidy: Fix all remaining misc-include-cleaner violations

- Remove unused includes
- Add common false positive headers to misc-include-cleaner.IgnoreHeaders
- Add IWYU pragma keep for uncommon false positive headers

src/tpm2-setup/tpm2-setup.c

@@ -9,7 +9,6 @@
 #include "build.h"
 #include "conf-files.h"
 #include "constants.h"
-#include "creds-util.h"
 #include "errno-util.h"
 #include "fd-util.h"
 #include "fileio.h"
@@ -20,12 +19,9 @@
 #include "mkdir.h"
 #include "parse-util.h"
 #include "pretty-print.h"
-#include "recurse-dir.h"
 #include "set.h"
 #include "string-util.h"
 #include "strv.h"
-#include "terminal-util.h"
-#include "time-util.h"
 #include "tmpfile-util.h"
 #include "tpm2-util.h"