Thanks to one of the guys who posted on my previous post, I got the info that seems there is a problem with the SD cards on Acer Aspire One and maybe even other system in case of a suspend/standby. It seems that in the new kernel MMC drivers are set to modules and also MMC_UNSAFE_RESUME it’s disabled, which also seems to kind of destroy the file system on SD cards after resume from suspend/standby. The fix can be found at https://bugs.launchpad.net/ubuntu/+source/pm-utils/+bug/342096 and requires to modify the kernel configuration from:

CONFIG_MMC=y
CONFIG_MMC_BLOCK=m
CONFIG_MMC_SDHCI=m
CONFIG_MMC_SDHCI_PCI=m
# CONFIG_MMC_UNSAFE_RESUME is not set

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