Not without putting it in an EKA situation I wouldn't think.
The way I would do it... lock it with the remote, and then unlock it with the key in the door. Normally you would need the EKA to get it started.. then try entering it with the Nanocom, and see what happens. If it doesn't work, you can still hit 'unlock' on the remote and as the remote is still in sync, the BECM will see that, unlock, and should return to normal operation.
That to me is the only way with the smallest chance of something going sideways - without putting it in a full EKA lockout situation and hoping for the best...
'06 4.2 Supercharged Black/Cream "Jess" -- Bought April 2021 (NZ)
'01 4.6 Vogue Black/Lightstone "Snog" -- Bought Jan 2012
'99 4.6 HSE Cobar Blue/Lightstone -- Sold March 2009
'95 4.6 HSE Epsom Green/Tan -- Traded June 2008