The lead time from Japan is just part of the process as they have to get a license for export. However, if you go with a reputable company like mentioned above, your risk is exponentially diminished. That being said, the biggest risk is the shipping itself, as pirates working in the shipping hubs have made a dent in the market. The only way to combat this is to make sure that the retailer you purchase from has your package fully insured in case of loss. This problem with missing packages seems to me more prevalent in the EMS system, so if possible you may want to choose UPS, albeit considerable more expensive.
Purchasing things from overseas requires more patience, but if you love the piece you are buying, it's worth the gamble IMO. I made a purchase last month and the package went missing. It was fully insured and am now working with the retailer to process the claim. Thankfully, of all the packages I have imported, this was one of the most inexpensive, so I am relatively unbothered, just a bit annoyed.