Mailman,
Normal does not mean it is good.
While others have seen metal shaving in the filter making it "normal" it does not constitute there is not a problem or design flaw.
Metal can come from different sources.
1) Machining drilling, tapping, boring, etc. This should be cleaned/removed before the part is assembled. Any left over machining spirals, chips, shavings, etc are simply poor quality and someone taking a short cut in the manufacturing process. It is very common practice to wash internal machined parts before assembly.
2) Wear these will be very fine particles and to some degree can be expected, but again points to overall design flaws or cost/benefit tradeoffs during the design phase. Ex: Improper lubricant film, improper material hardness, etc.
3) Abuse Ex: jamming gears together leading to parts breakage.
Have the dealer put their comments in writing and send a copy of the document along with photographs or samples of the metal to Kubota for an official response. Ask them if this constitutes normal and meets their quality standards. (If it does meet their quality standards perhaps they are willing to quantify when does it become too much?) Ask the dealer if they would mind putting these shavings into their personal car since it is ok.
Does this mean you will have long term problems? Who knows? I for one would not stand for it though.
Does the hydraulic filter have a bypass in it? If it does, it is possible these shavings went through the system before being caught by the magnet/filter.
Remember the only incentive the manufacture has is to get you through the warranty period. After that you are on your own and where do you have to go for replacement parts? How long do you plan on owning your tractor?