Try using hardfile (use .vhd format to keep physical size small) to rule out some weird hardware issue. Also try making sure third partition is inside first 128G of drive, if it works, it probably has something to do with LBA48. >128G IDE drive requires LBA48 but 3.1.4 should implement it.
Does larger partitions work if you don't use IDE emulation but mount it using UAE controller (uaehf.device)?
104G is per-partition limit. Single drive can have multiple 104G partitions.
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