Hi and welcome.
AmiKit and FlowerPot are completely different products.
AmiKit is about AmigaOS3.x emulation and contains MANY pre-installed programs. To run AmiKit, you need AmigaOS3.x located on Amiga Forever OR AmigaOS4.1 CD. Please note that the AmigaOS4.1 CD is a medium which also includes AmigaOS3.1 files required for AmiKit. The CD also contains AmigaOS4.1, of course, but it's not used by AmiKit. For more info please refer here: http://bit.ly/AmiKit-QuickGuide
Flower Pot is about AmigaOS4.1 emulation and contains just basic programs. To run AmiKit you need AmigaOS4.1 from AmigaOS4.1 CD and some ROM files from Amiga Forever. More info here http://file.amiga.sk/flowerpot/windows/GardenersGuide.pdf
To change fonts of AmiKit desktop icons, press right-mouse button on desktop and select Settings -> Environemnt and then go to Icons part.
To change the config of the bottom bar, press and hold right-mouse button over the bar or over the start button. Please note that any change is saved immediatelly. Also if you change screenmode or other visual settings in MorpheuZ, your config might be overwritten. herefore I recommend to backup your AmiKit before experimenting.