Charging is indifferent between dock and side jack. Nuisance taking brick out of dock. The side jack is more direct.
 oops -- I think you have to be off the charger when updating. Online procedure always advised.
The problem I would think of is whether the Vorwerk procedure was usable on so old an initial version of software installed, maybe before there ever was a Vorwerk. The effect of SetConfig commands should be seen on the LCD display or over USB GetVersion command.
Neato Robotics' update system is described in the other thread http://www.robotreviews.com/chat/viewtopic.php?p=134696#p134696
with files for the Rev64 boards. The older board software was found on the Vorwerk servers.
There is an automatic software reversion mechanism built in for some cases, where an LCD error message and USB advisement exists for "an update is available", meaning the main software encountered a failure and the system reverted to a backup. You can also test the reversion special key combos on the system first because they are only temporary until the system is rebooted by powering off and on.
Some error msgs even ask you to reboot -- press ok to restart. Sure signs the hardware is damaged.
What bricks the system is damaging the USB interface software needed to flash. There is a USB command to flash, without details in the manual. Additional com sends SetConfig parameter setting commands. The parameters are shown in the GetVersion info, and have those names.
There might be a way to use the Vorwerk files with the Neato Robotics upgrader program, you would have to look at the structures of the procedures I have not compared in detail.
Basically the Vorwerk and Neato code files should be the same except for the SetConfig commands in separate com to set up each hardware system, battery charging type etc.
(If you need a new battery you might want to make your own lithium battery now easy by setting the Vorwerk type for proper charging. Good results in France, thread "lithium ion revisited" here.)
The battery load updating is minimal compared to running. Comp runs only around 100ma compared to 3 amps motors.