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The difference is in camera

The difference is in camera color profiles used in LibRaw and dcraw.

To get the same color as in dcraw, please go to adobe_coeff() function in (LibRaw)/internal/dcraw_common.cpp
and replace our color profile (two lines:
{ "Fujifilm X-E2", 0, 0,
{ 12066,-5927,-367,-1969,9878,1503,-721,2034,5453 } },
to dcraw.c profile:
{ "Fujifilm X-E2", 0, 0,
{ 8458,-2451,-855,-4597,12447,2407,-1475,2482,6526 } },

Than re-compile/rebuild libraw/dcraw_emu

-- Alex Tutubalin