I presently run a SATA RAID system,I had major hassles with a SATA only install,the OS crashed every three days requiring repair procedure to get another 3 days etc.
I was advised to setup the SATA drives with a small partition to carry the OS,this I did and it cured my 3 days crashes.
I then installed my previous IDE hdd,to carry the OS and set the SATA hdd's as vast storage(2x120Gb)This was fine,I was happy until reading up on SATA hdd's set me of with an urge to see how they performed speed wise.I was horrified to find that IDE + SATA was running really slowly.
After several days of reading up on the web,updating driver for SATA,flashing the Silicon Image controllers firmware,and eventually the firmware on the SATA hdd's too,I tried removing the IDE hdd.The SATA's instantly shot up in speed to a comparable level of other SATA systems.
So,to answer your question,no ATA doesn't have problems with SATA,but the reverse.