Repro steps:
1) Open the project EmmisionUnity4 in Unity 4.6.x
2) Open the project EmmisionUnity5 in Unity 5.3.x
3) Notice the difference between them (see pictures for more differences, this case picture no. 1)
4) Increase Indirect Lightning in the Unity 5.3 to 1 from 0.5 and build lighting(pic 2)
5) Select any mesh, that has home-house_g material and change it's shader to KickBack->ColorOnly(pow 2.2) DO NOT BUILD LIGHTING (note it looks quite similar in pic 3)
6) In Scene view look at the bedroom (pic 4) - not all the lighting is consistent

Reproduced in: 5.4.0b1; 5.3.1p1; 5.2.3p3; 5.1.4f1
Regression from 4.x