Below is what i planned. Let me know if this sounds ok. (very intense)
THURSDAY
6AM IEV TO MSQ (55MIN) BELAVIA $84
DRIVE TO RADUN BELARUS (1HR 45MIN) – CHOFETZ CHAIM
DRIVE TO VILNIUS (1HR) – VINA HAGAON, CHAYE ADOM, R CHAIM OZER & OTHERS (Sudervės Kelias 28)
DRIVE TO KAUNAS (1HR)
3:50PM KAUNAS TO JFK (11HR) STOPOVER IN WARSAW (1HR )
5PM WARSAW TO JFK (9HR)
ARRIVE IN JFK 8:15PM
Your trip schedule is extremely tight. I would suggest you lengthen it by a few days. From Minsk airport to Radun' it will take closer to 3 hours (237 km). You could stop in Vałožyn on the way. When I did this tour for others, I included many other places such as Mir (former site of Yeshiva and the kever of R' Yeruchum Levovitz zt'l), Navahrudak/Novardok, and Grodno (R' Shimon Shkop & R' Alexander Ziskind z"l ("Yesod Ve'shoresh Ha'avodah").
From Radun' to Vilnius - you also have to budget much more than an hour. Google maps shows the shortest route - 87km - however, as a foreigner you will not be allowed to use the Eišiškės border crossing. Šalčininkų border crossing would be an extra 10km. however you should budget at least 30-45 minutes for the border formalities. (It could be shorter, just be lucky that your itinerary is not the other way around from Vilnius to Belarus, as the queue into Belarus takes hours and hours!)
Once you are in Vilnius, in addition to the cemetery at Sudervės Kelias 28, you should consider visiting the Užupis cemetery, where Boruch Ber Leibowitz is buried. 10km west is the Paneriai forest Memorial where ~70k Jews were killed.
In Kaunas, there is also much to see. R' Yitzchak Elchonon Spektor is buried in the Aleksotas cemetery. The old Jewish Žaliakalnis cemetery on Radvilėnų pl. has 5,808 of gravestones still remaining from before the war. Crossing the bridge over the Neris river, is Slabodka (Vilijampolė) - one can see the streets of what used to be the Kovno ghetto and the building that once housed the Slabodka yeshiva. Also to see in Kaunas, is the 9th Fort, where 30,000 Jews, and notably R' Elchonon Wasserman was killed.
http://en.wikipedia.org/wiki/Ninth_FortPerhaps you can extend your stay and stay over in Vilnius over Shabbes. Many other places to see, e.g. like Keidan, Kelm, Telšiai, etc.
Also two hours from Vilnius, is Daugavpils, Latvia (Dvinsk) where the Ohr Somayach and the Rogatchover are buried.