Custom Posts Disappear

[crashwave]

In functions.php

function childtheme_override_index_loop()

on line 479

query_posts(array("post__not_in" =>get_option("sticky_posts"), 'paged' => ( get_query_var('paged') ? get_query_var('paged') : 1 )));

removes all custom posts which are enabled by plugin/function to show custom posts on home page. When plugin enabled the Custom posts are shown when the parent thematic theme enabled.
I have commented the line out for now.

[crashwave]

Using the simplified Custom Post Types in the Main Query here http://codex.wordpress.org/Post_Types#Custom_Post_Types_in_the_Main_Query exactly as written with

query_posts(array("post__not_in" =>get_option("sticky_posts"), 'paged' => ( get_query_var('paged') ? get_query_var('paged') : 1 )));

is the problem. I had to rewrite the function for Custom Post Types in the Main Query a little to get it to show the custom post types with the query_posts above, as without it they are double posted b/c flexslider as you said. (sorry didn't have a sticky when testing earlier and never used flexslider)
So if anyone having problem displaying the custom posts on home page tweak the example on WP a little.