I like the external incremental back-up philosophy best myself. It's outside the system so not subject to system-wide electrical faults and failures, it can be turned off when not in use thus prolonging it's life tremendously and consuming less power overall, and if lightning fire or water fries the MacPro system the external unit may survive. The external unit doesn't need to be the same size as all internal drives combined. About half size will usually do. It itself can be a RAID 0 if you have the money or it can be a single 1TB, 1.5TB or one of the new 2TB drives. FW800 is good enough if it's a single drive... that's about 100 MB/s and that's all a single drive can do anyway.[/QOUTE]
Definitely a better way to go.

Size of the backup varies though, and in cases where backups are a mixture of entire system and incrementals, it can get larger than the primary array. An email server is a perfect example. Make a system backup (entire) monthly, and nightly incrementals. Assuming the server handles a large number of accounts, you can run out of drive space. So setting a retention span (say 1 month) helps to mitigate this.
Such a backup plan is up to the user/administrator in a SOHO environment, but is also assisted by the fact it won't be used by 1000's of users.

But they still have to decide what they wish to do, and use that to base their decisions on. Hopefully, they won't fill the array that fast, and the backup drives won't have to be huge, or will be filled quickly. But in the end, worst case here is just get another drive. Rather cheap when compared to the rest of the system. Particularly compared to the cost of data recovery.
Related to the above assertions, a few months ago I changed my system around so that the OS, apps, and high-speed data were all on the same 3-drive RAID 0 and I used the other drive for image, 3D, video, and audio clip storage to see how the system performed differently. The result so far is that it boots faster, apps load a tiny bit faster, and searching the system is quicker. Video editing, Photo & Image editing, DTD audio recording, music mixing & scoring, and large frame writes from lengthy render sessions show no significant increase or decrease in performance. So it doesn't seem to matter that my high-speed data partition is on the same RAID-0 set as the OS and apps.
If possible, placing everything on a single array can improve the overall performance of the system. However, redundancy becomes more important IMO, as recovery, even with a proper backup system, can cost quite a bit of time, and money if the work is being done by an IT person (paid with $$$, not beer, or some other tasty beverage for a friend).

If it's yourself, a royal PITA. One I prefer to avoid.
Thx a lot to nanofrog and Tesselator for the very interesting discussion about theory and practice of "speed management". Maybe all this RAIDO is a bit of a speed hype not leading to really impressive increase at all which further more has to be planned very carefully. Summarizing for me personally I am realy thinking about going with a WD VelociRaptor as system and apps disk to start with. This seems be a good investment into more speed so far as system and apps should start noticeable faster. And not putting more data on it, it should not be a big deal to switch to an SSD later on, when prices will come down "a bit". Disk 4 will be a big one (1TB or higher) to backup the whole system via Time Machine, from where an external backup can be made frequently also (FireWire). And than see how to organize data on disk 2+3. I guess with 8GB at all Photoshop has enough RAM to use as "scratch" so far. And starting time of 2-3 seconds from WD VR is quit impressive also.
Planning a SSD later on, it might be an option to use disk 1+2+3 for RAIDO on system, apps and data on WDs Caviar Black or RE3 and backup on disk 4 + extern.
So you wan´t have to buy a WD VR for at least a year or so. On the other hand: for "boots faster, apps load a tiny bit faster, and searching the system is quicker" it doesn´t seem to be a promising way at all.
Buying a WD VelociRaptor and replace it by a SSD in a year or so will probably be the best way to increase speed of system and apps so far.
Later on the WD VR will become a fast data disk in position 2 as well.
Use additional drives.

If the optical bay is empty, you can have 5 HDD's. You can add a second drive (6 max) to the optical bay, and use a SATA card (preferably with eSATA for future growth; external) for a port, if you have an available slot.
Beyond that, you have to go external. On this note, place the backup drive in a single external enclosure, and use the HDD bay for an additional RAID disk. It's an inexpensive solution, particularly for a MP.
I use a VR, and it's not bad, but I'm somewhat dissappointed with mine. I'm only getting an Avg. throughput of 97.8MB/s, and it should be more like 107MB/s. I get higher Avg. throughput from the RE3s (107MB/s), only with slower Random Access! (I need to contact WD though, as it seems to be firmware related. Everything else, such as SMART and sectors checks out).
Overall though, I don't consider my experience common. Just look at the posts on the forum. It seems many users are quite happy.
It's the planning or "over planning" plus vendor recommendations that I'm not so sure about. It so needed? It's critical? My general and very unscientific tests so far tell me that most of that is just a bunch of anal hooey even tho I've always followed it in the past myself. <shrug>
What reccomendations are you refering to?
The stuff I usually see is pertinant. HDD Compatibility lists, memory (i.e. ranking), motherboard/system,... It's hardware though. I usually shy away from software.
Yes, I got that. My conclusion was: RAIDO with 3 disks or no RAIDO at all.
As I build a totaly new system I may try during the setup.
Problem will be: disk decision should be made before
3 disks or more.
You should know what drives you're going to use first. Research pays off here, especially if you ever switch to a hardware solution. It can be done the other way arround, but can get expensive (RMA's involving restocking fees, and shipping). Not to mention the time spent and resulting headaches.