I've recently started using Secunia Corporate Software Inspector (CSI) to deploy third party updates on my customer sites. It's really easy to set up and configure and integrates very well into the existing ConfigMgr monthly updates cycle. Users do not notice that third party applications are now being updated also.
Follow the links below to see the series of blog posts. I hope they will be helpful to you.
Leverage Your ConfigMgr Investment for Third Party Patching
Secunia CSI is a Microsoft Preferred Solution
Secunia CSI Portal
Secunia CSI Portal initial configuration
Inventory and CSI Agent
Patch third party applications