im using rtoolds in combination with ndscrc.

as for the above problem, i think it's because the database hasnt been in updated for weeks now.
either that or, file->options->misc-> enable unknown/homebrew rom file detection isnt ticked, which makes newer roms which arent in database not showing up.

 

there was a guide somewhere on this forum..need to find it

and yes, rtoolds as rom manager and ndscrc as rom/archive renamer

edit
found it: http://gbatemp.net/index.php?showtopic=82818
though parts of it is outdated (e.g, it makes it own folders when you input the folder in the settings tab)

 

I checked, I do have have that checked already. I guess Ill just need to stop being lazy and uninstall / reinstall this see if it will help.