I am using this neat trick from another Stack Overflow question: True Isometric Projection with OpenGL to setup an isometric projection. If I draw just outline with lines everything is fine 1 but if I draw polygons they get clipped and so lines 2.
Code to setup projection:
pmv.glMatrixMode(PMVMatrix.GL_PROJECTION);
pmv.glLoadIdentity();
float dist = (float)Math.sqrt(1 / 3.0f);
pmv.gluLookAt(dist, dist, dist,
0.0f, 0.0f, 0.0f,
0.0f, 1.0f, 0.0f);
NOTE: I am using JOGL, so it might be a possible bug there; other than that, no culling, depth test enabled and depthrange for offsetting lines/polys.