You could say that about all capitalistic incentives. The breeding program that developed Honeycrisp got very little money for the years of toil invested in creating it- it caught on at the tail end of the patent. Government funding, especially at the state level, has been drastically reduced for projects such as breeding new fruit varieties.
I really don’t know if the most efficient way of running these programs is through tax payer funding or by having the producers of the fruit pay for it and passing on the cost to customers- but this is probably an instance where the private sector is the way to go. I believe in letting the gov do what it can do best and leaving the rest to the private sector. New Zealand is doing a lot of breeding with tax dollars, as does Canada- I would like to see a cost analysis of which approach gets the most bang for the buck. I’m certainly thankful for the Canadian pear introductions.