Problems with missing Launch Agents and Daemons

I recently updated to new 10.10. However machine is on the end of its life and usually I would do a clean install. Somewhat I always have troubles with the update. Yet again, here is what happen when I did just an update:

Startup Items: ℹ️
ChmodBPF: Path: /Library/StartupItems/ChmodBPF
Startup items are obsolete in OS X Yosemite

Problem System Launch Agents: ℹ️
[failed]    com.apple.AirPlayUIAgent.plist [Details]
[failed]    com.apple.CallHistoryPluginHelper.plist
[failed]    com.apple.CallHistorySyncHelper.plist
[failed]    com.apple.cmfsyncagent.plist
[failed]    com.apple.EscrowSecurityAlert.plist [Details]
[failed]    com.apple.icloud.fmfd.plist
[failed]    com.apple.SafariNotificationAgent.plist
[failed]    com.apple.scopedbookmarkagent.xpc.plist
[failed]    com.apple.warmd_agent.plist [Details]

Problem System Launch Daemons: ℹ️
[failed]    com.apple.awdd.plist
[failed]    com.apple.ctkd.plist
[failed]    com.apple.diagnosticd.plist [Details]
[failed]    com.apple.DiagnosticReportCleanUpDaemon.plist [Details]
[failed]    com.apple.icloud.findmydeviced.plist
[failed]    com.apple.ifdreader.plist
[failed]    com.apple.installd.plist
[failed]    com.apple.nehelper.plist
[failed]    com.apple.periodic-daily.plist [Details]
[failed]    com.apple.softwareupdate_download_service.plist
[failed]    com.apple.softwareupdated.plist [Details]
[failed]    com.apple.wdhelper.plist

In my observation not all of them fails all the time, but it does give rather hard time on my machine.

I tried to reload the modules with launchctl, but does not make a difference.

Do you believe those modules are duplicated with the new OS's modules and hance not needed? Can I safely remove them or repair the OS ?

Any suggestions how to deal with the problem are welcome.