you shouldn't have done that chmod command. mineos runs differently then other programs, it runs as root and manages permissions permissions only on its server/world files, app file permission shouldn't ever be a problem.
I'd check /var/log to see if the mineos logs in there have any clues. maybe one of the steps I gave didn't apply fully.
I'd also confirm you can login to mcsevrer on the commandline with that password.
chsh -s /bin/sh mcserver
su mcserver
Here is the dump from the service mineos update:
gmake: Entering directory '/usr/pbi/mineos-amd64/share/mineos/mineos-node/node_modules/posix/build'
CXX(target) Release/obj.target/posix/src/posix.o
cc1plus: error: unrecognized command line option "-std=gnu++0x"
gmake: *** [posix.target.mk:88: Release/obj.target/posix/src/posix.o] Error 1
gmake: Leaving directory '/usr/pbi/mineos-amd64/share/mineos/mineos-node/node_modules/posix/build'
gyp ERR! build error
gyp ERR! stack Error: `gmake` failed with exit code: 2
gyp ERR! stack at ChildProcess.onExit (/usr/local/lib/node_modules/npm/node_modules/node-gyp/lib/build.js:276:23)
gyp ERR! stack at emitTwo (events.js:106:13)
gyp ERR! stack at ChildProcess.emit (events.js:191:7)
gyp ERR! stack at Process.ChildProcess._handle.onexit (internal/child_process.js:204:12)
gyp ERR! System FreeBSD 10.3-STABLE
gyp ERR! command "/usr/local/bin/node" "/usr/local/lib/node_modules/npm/node_modules/node-gyp/bin/node-gyp.js" "rebuild"
gyp ERR! cwd /usr/pbi/mineos-amd64/share/mineos/mineos-node/node_modules/posix
gyp ERR! node -v v6.3.1
gyp ERR! node-gyp -v v3.3.1
gyp ERR! not ok
npm ERR! FreeBSD 10.3-STABLE
npm ERR! argv "/usr/local/bin/node" "/usr/local/bin/npm" "--prefix" "/usr/pbi/mineos-amd64/share/mineos/mineos-node" "update" "--python=/usr/pbi/mineos-amd64/bin/python2.7"
npm ERR! node v6.3.1
npm ERR! npm v3.9.2
npm ERR! code ELIFECYCLE
npm ERR! posix@4.0.2 install: `node-gyp rebuild`
npm ERR! Exit status 1
npm ERR!
npm ERR! Failed at the posix@4.0.2 install script 'node-gyp rebuild'.
npm ERR! Make sure you have the latest version of node.js and npm installed.
npm ERR! If you do, this is most likely a problem with the posix package,
npm ERR! not with npm itself.
npm ERR! Tell the author that this fails on your system:
npm ERR! node-gyp rebuild
npm ERR! You can get information on how to open an issue for this project with:
npm ERR! npm bugs posix
npm ERR! Or if that isn't available, you can get their info via:
npm ERR! npm owner ls posix
npm ERR! There is likely additional logging output above.
npm ERR! Please include the following file with any support request:
npm ERR! /npm-debug.log