Minimised programs don't appear in the Dock

I just had to reformat and lost my old dock. I downloaded a new dock and installed it and started to customize it but I can't get minimised programs to appear, when I minimize an program it seems to dissapear behind the relevent icon onthe dock but thats no good for Internet explorer if you have more than one window open, also I am finding that the dock icon doesn't always open the app when I click it, sometimes I have to right click the icon then click open. Please could someone help, am I missing something, I can't see any reference to minimized apps in the settings.
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Show running tasks on dock (with right or left option) will enable tasks to be displayed.

Deselecting "Task grouping option" will enable multiple instances of a program.

Selecting the option to represent minimized programs with a screenshot will enable the mini screenshot images.

Currently at work, so I do not have the config panel in front of me to direct you to the exact locations (I believe the options are in the Content, and Appearance tweaks sections for OD+, the free version config panel is a bit different - so poke around to find the options listed above).