I need tip on how to format hard disks on following configuration to gain on performance.
I've marked the use of disks in red. Question is primarily about format (NTFS or FAT), but if you have different suggestions addressing raid fields please state the opinion or ask me a question.

THANKS in advance.

configuration:
MICROSOFT Windows7, Ultimate, x64
1X MB GIGABYTE GA-X58A-UD7, Intel X58/ICH10R, DDR3, sound, 2xG-LAN, S-ATA, PCI-E, eSATA, FW, s. 1366
1X Procesor INTEL Core i7 Extreme Edition 980X BOX, s. 1366, 3.33GHz, 12MB c., FSB 1333MHz, 64 bit, SiXCore
3X RAM PC-19200, 4 GB, G.SKILL PI-Series F3-19200CL9D-4GBPIS, DDR3 2400MHz, kit 2x2GB + AIR FAN
1X RAM cooler ZALMAN ZM-RC1000 Titanium
1X Northbridge cooler THERMALRIGHT HR-05 SLI/IFX, pasive
8X HDD cooler Scythe Silent Box Himuro SCH-1000
2X HDD 2000.0 GB, WESTERN DIGITAL Caviar Black, SATA, 64MB cache, 7200okr./min (1 for daily incremental system and essential data backup at shutdown using acronis and 1 for lass important data storage)
4X HDD 300.0 GB WESTERN DIGITAL VelociRaptor 3000HLFS, SATA, 16MB c., 10000 okr/min, (For 2 stripe 0 raid, 1st for system, 2nd for data)
2X SSD 160.0 GB INTEL X25-M, SATA, 2.5'', SSDSA2MH160G2R5, MLC-Chip 250/70 MB/s (For stripe 0 raid used for paging file, temp, photoshop...)
2X BD-ROM LG SuperMulti BLUE CH10LS20, SATA, black, LightScribe
1X Floppy drive 3.5'', 1,44MB
3X VGA PCI-E SAPPHIRE ATI RADEON HD 5970, 2GB DDR5, DP, DualDVI, HDTV
1X Power suply 1000W, CORSAIR HX Series CMPSU-1000HXEU, ATX2 v2.2, 140mm vent., modular
1X USB FLASH DRIVE 64 GB, MUSHKIN Midnight (for ready boost)
1X Tower ZALMAN Z-Machine LQ1000, hybrid, black, no PS

Looks good, NTFS is better. Use NTFS.



I can only guess what you are doing with the system, but I can say your best bet for more performance is OCing that 980x.

There is no reason you can't get 4GHZ out of it with some decent aftermarket cooling.

Megahalems, Noctua DH14, Corsair H50 are all good choices.