Hi Paradroid,
Then it becomes clear that the Loewe is using Vfreq value rather than Hfreq to discriminate PAL/NTSC. I dare to suggest these lines as a possible compromise setup:
monitor_specs0 15625-15734, 50.00-52.40, 2.000, 4.700, 8.000, 0.064, 0.160, 1.056, 0, 0, 288, 448
monitor_specs1 15625-15734, 58.00-65.00, 2.000, 4.700, 8.000, 0.064, 0.160, 1.056, 0, 0, 248, 448
The idea is that anything above 248 lines (just to provide a limit) will go through the first monitor_specs0 line, assigning the maximum Vfreq (52.4 Hz) for that range if original Vfreq value exceeds that limit.
On the other hand, anything below or equal to 248 lines will go through the second monitor_specs1, always forcing Vfreq above 58.00 Hz.
You can still run R-Type at 100% if you renounce to smooth scrolling: enable the -triplebuffer option just for the games you require it, and decide what you prefer.