hi, in a linux system, you can set the frequency of checking the filesystems with fsck, if it is what you mean, with tune2fs and -c option..
i.e. tune2fs -c 1 /dev/block/mmcblk2p10 (1 or 0, I don't remember)
the setting should be written in the partition, so you can launch the command only one time wherever you want.
does dmesg say something about install_recovery?
I don't understand why you have to run fsck on every boot. It should be enough to run it one time only.
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