As someone who has suffered from chronic RSI for years, your best bet is an external input device.
You can alternate between a mouse, and some of the other options out there. When I'm on the road, I've found the ozupad to be a decent alternative option.
Between a tracpad, a mouse, and an ozupad, you can change things up enough to hopefully avoid the worst of the repetitive motions.
For application deployment and management post-imaging, check out Filewave as an alternative to Radmind and Casper that others have mentioned. It works great with large scale deployments (even Adobe products), and can also works with Windows as well. Basically, it gives you the ability to add, modify, and remove any file on the HD over the network on all your machines.