I guess the Reference Manual is just missing the information, that the prescaler has to be enabled in order to get the 1ms overflow interrupt with the given values (Divisor PS = 2).
@TI, correct?
TPIR = 232000
TNIR = -768000
TLDR = 0xFFFFFFE0
What's missing in the TRM:
PRE = 1
PTV = 0