In my opinion if Your company approved and published a certain procedure, most likely with a no objection from Boeing or actually following directly a Boeing procedure, than it must be followed unless a deviation is required in the interest of safety, but again in my opinion this should be limited to an unlikely and unique scenario and not become a parallel SOP. We all know the threats associated to "don't worry we'll do it this way, we'll be ok" type of procedures. Anyway I am not pointing any finger and I am pretty sure You had loads of good reason to deviate from Your SOPs, but as pilots we should push for changes all together if something does not look right rather than finding alternative paths.
Just my 2 cents.