I use CF and SD cards on a Linux based PDA (Sharp Zaurus). The CF cards are formated as FAT for installing upgraded kernels and software packages, and for storing large files. The SD cards are formated as EXT2 in order to mantain links, and are used for installing software to.

I have heard you don't want to use CF/DS cards for stuff that requires a lot of R/W (as in swap space), since cards deteriorate the more R/W functions you run on it.

Also keeep in mind that all CF/SD cards are not created equal. My Lexar SD seems to handle some tasks better than my ScanDisk.

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