I noticed this tonight also after missing a few bombs. When i change a profile via the profile screen, then it'll appear not be applied when i few the profile via the DSMS. Although when i go back to that profile via the profile screen it'll have the settings as i set them...
For the settings to work i need to select one of the bombs in the DSMS, press the prof button and make the changes there. When saved the settings will be used for all the bombs of the same type.
EDIT: After reading the above posts, i guess i've been doing it wrong also. When has this changed because it worked like this in beta?