The rest would not be seen on WB so i set them as FFS and they work.
No, they definitely do not work correctly, although it seems so. FFS cannot access outside of the first 4GB of the harddrive. But it does not care, it simply ignores the overflow which happens when calculating the byte offset to the place where to access. This means instead of accessing the area which you reserved for the FFS partitions, it writes to an area inside the first 4GB of the harddrive which belongs to a completely different partition.
Edit: Instead of a Format i gave it a Quick Format as the initial format. Is that bad? I am now trying a full format.
Quick format is the only working way to correctly format a partition outside of the first 4GB. The Format program has the same problem as FFS. If you fully format a partition outside the first 4GB of the harddrive, it will destroy another partition inside the first 4GB.
SFS is all a mess i think... Even now stuff in the system partion is saying HD0 has a blockid error in block xxxxx expected blockid 0x424e4443, but the block says it is blockid 0x6a727778,
That's what happens when you put a FFS partition outside the first 4GB: it overwrites data of another partition. This is not a SFS problem, this problem is caused by your improper use of FFS.