LoopBuddy is one of those rare plugins which can play well with many external plugins. However, any external plugin compatibility is NOT guaranteed in any manner, since external plugins are not covered nor supported by PluginBuddy in any manner or fashion.
If there is a problem when any other plugin is used with LoopBuddy, it does not mean there is a bug in LoopBuddy. First you should check if there is a problem in the other plugin (since LoopBuddy already currently works without any issues in each and every aspect of its publicized features). Then you have to see if the problem exists when the other plugin is de-activated and LoopBuddy is kept activated. Only after such steps and more analysis can we at PluginBuddy devote any time or resources to see whether or not there is something in LoopBuddy that can be fixed, enhanced or improved to make it work better with the external plugin in question, if that external plugin is not the source of the problem.
Custom Post Types
At this time, Custom Post Types UI is the only supported plugin in LoopBuddy for creating custom post types. We recommend you try and use that to create post types.
Otherwise, you should add custom post types directly to your functions.php file in your current theme.
At this time, WP-PageNavi is the only supported plugin in LoopBuddy for having custom page navigation. We strongly recommend you try it for any of your custom page navigation needs.
Related link: WP PageNavi WordPress Plugin
At this time, Advanced Excerpt is the only supported plugin in LoopBuddy for allowing custom lengths and formatting for excerpts in WordPress.
Related link: Advanced Excerpt WordPress Plugin