It shouldn't effect your server in any way. The first console log you pasted is from a recently installed server. It uses
srcupdatecheck to check for updates, before launching hldsupdatetool. This typically results in much faster server starts, mainly when the steam servers are having issues.
The second console log just doesn't have this feature enabled. If you really want it, you can reinstall your server and it will be added. If you don't want to do that, there's really no issue. The server still has -autoupdate on the command line, and still should automatically update itself.
Note that this has nothing to do with SourceMM/SourceMod, and everything to do with gameservers.com (where you both get your servers from).
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