iRule LX Workspace must be reloaded after reboot

I personally have not seen such a behavior (I start and shutdown my BIG-IP VE every day too).

The 'content differs from workspace' warning appears when the codes in workspace and plugin are different. Possibly, the reload was not actually successful. The workspace codes are stored under /var/ilx/workspace and plugin ones are under /var/sdm/plugin_store. Check if they are the same (note file and directory names are different in some areas) after reloading. Check /var/log/ltm if the reload was successful. If your environment is an HA, make sure you have only one workspace among the peers (there should be just one workspace per cluster: See also K04523742: Device group synchronization for iRules LX configuration objects).

If you do not find anything suspicious, it may require deeper analysis. Consider raising a ticket to F5 Support.