There are some declines but not generalized to all. For example, Fukumoto navels have declines on C-35 and Carrizo citrange, but these are typical of genetic incompatibilities between scion and rootstock and so definitely not true for all citruses.
Some stunting could be blamed on susceptibility of trifoliate and citrange rootstocks to some viroids which the scions are tolerant, and so with the weakened rootstock, the overall tree is weakened.
The citrus trifoliate was first used in the US in 1869, definitely we have had more than 100 years of experience to tell us if it is bad for all citruses as a rootstock and would have shortened tree life of all citruses.
Citrange hybrids for example were started as early as 1904 [The term citrange was announced and the first variety named and described in 1904 (Webber and Swingle, 1905) and subsequently a dozen or more have been added. For descriptions of most of them the reader is referred to Webber (1943, pp. 656-65) and the literature he cites.], so it should have been well established fact before the current $billion worldwide citrus industry have embarked on using these rootstocks.