How to align this part free state?

Do you mean the other way around? Where Datum B is an Ellipse and Datum A as a Cylinder? Picture is kind of small, I can't tell what side of the part that cylinder is on. Maybe my eyes are bad.

Wait is datum A the side view of those curved surfaces?

I'm not good at roughing up things in PC-DMIS yet, so forgive me. I'm still quite a noob with this stuff.

CIR1       =FEAT/CONTACT/CIRCLE/DEFAULT,CARTESIAN,IN,LEAST_SQR
            THEO/<-3,0,0>,<-1,0,0>,4.71,0
            ACTL/<-3,0,0>,<-1,0,0>,4.71,0
            TARG/<-3,0,0>,<-1,0,0>
            START ANG=0,END ANG=360
            ANGLE VEC=<0,0,1>
            DIRECTION=CCW
            SHOW FEATURE PARAMETERS=NO
            SHOW CONTACT PARAMETERS=NO
CIR2       =FEAT/CONTACT/CIRCLE/DEFAULT,CARTESIAN,IN,LEAST_SQR
            THEO/<3,0,0>,<-1,0,0>,4.71,0
            ACTL/<3,0,0>,<-1,0,0>,4.71,0
            TARG/<3,0,0>,<-1,0,0>
            START ANG=0,END ANG=360
            ANGLE VEC=<0,0,1>
            DIRECTION=CCW
            SHOW FEATURE PARAMETERS=NO
            SHOW CONTACT PARAMETERS=NO
ELL1       =FEAT/CONTACT/ELLIPSE/DEFAULT,CARTESIAN,IN
            THEO/<0,0,3>,<0,0,1>,4.71,3.2,<1,0,0>,0
            ACTL/<0,0,3>,<0,0,1>,4.71,3.2,<1,0,0>,0
            TARG/<0,0,3>,<0,0,1><1,0,0>
            START ANG=0,END ANG=0
            SHOW FEATURE PARAMETERS=NO
            SHOW CONTACT PARAMETERS=NO
CYL1       =FEAT/CYLINDER,CARTESIAN,IN,LEAST_SQR,NO
            THEO/<-0.1,0,0>,<1,0,0>,4.71,6
            ACTL/<-0.1,0,0>,<1,0,0>,4.71,6
            CONSTR/CYLINDER,BF,CIR1,CIR2,,
A1         =ALIGNMENT/START,RECALL:STARTUP,LIST=YES
              ALIGNMENT/LEVEL,ZPLUS,ELL1
              ALIGNMENT/ROTATE,XPLUS,TO,CYL1,ABOUT,ZPLUS
              ALIGNMENT/TRANS,XAXIS,CYL1
              ALIGNMENT/TRANS,YAXIS,CYL1
              ALIGNMENT/TRANS,ZAXIS,ELL1
            ALIGNMENT/END

Something like this?

What have you tried? I know Cylinders should be able to control 4 Degrees of Freedom.

My understanding is that the part locates on the B datum and the rotation is locked in due to the form. A Datum levels the part out. I am trying to measure the B Datum as a cylinder but I only have a small amount of surface area to do so. Im measuring A as an eclipse. I will try what you suggested above, I appreciate your feedback.

My understanding is that the part locates on the B datum and the rotation is locked in due to the form. A Datum levels the part out. I am trying to measure the B Datum as a cylinder but I only have a small amount of surface area to do so. Im measuring A as an eclipse. I will try what you suggested above, I appreciate your feedback.

I think I may have misunderstood the print, what is the "PT A" and "PT B"? I am not familiar with this type of callout. Is it similar to Datum Targets?

They are used to callout dimensions in the print. PT A shows the relationship between the center of the eclipse to the rest of the part and I'm assuming point a to point b is giving the angle of the B datum. I don't want to show too much information so I apologize if I'm not giving you much to work with. 

No, that's fine. I just wanted to make sure I was not missing any information from what you have shown already. We all got jobs to keep, no worries.