RM #1186: Fix libs-update and libs-patch to better manage lib submodules.

Michael J. Hammelrequested to merge
feature/move-to-arduino-cli into master

Add arduino-base64 submodule to build libs. Remove examples dirs from AES to avoid lib build failures. Use -C with git commands to avoid "cd dir && git command" patterns. Use -q to quiet git commands. Use --clean with compile option to avoid library caches. These are not necessary on fast (re: modern) build machines.

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