First, a thought on timing. I think you would be well advised to plan your trip for mid September to early October, at the latest, if you are heading into the higher sections of the Sierra. Early winter storms can come without much warning and dump enough snow to make getting out over 11-12000 foot passes extremely difficult. That said, if you are fit here are a couple of suggestions: 1) starting at the Shepherd Pass TH, go over the pass(12050') and follow the trail across the JMT and on to Milestone Basin. This is a beautiful high basin with numerous lakes, nestled up against the Great Western Divide. From excellent campsites there, you can dayhike and explore the entire Upper Kern Basin if you wish and return the way you came; Or, from there, follow the trail south down into the Kern Canyon to Junction Meadow and take the trail east up Wallace Creek to the JMT. Cross the JMT and follow a boot track about 4 miles further east up to Wallace Lake. This is another beautiful lake basin worth exploring. From there it is an easy cross country hike over to Wright Lakes Basin, yet another beautiful lake basin worth exploring. It is an easy hike north from there over a saddle on the Tawny point ridge to intersect the trail you came in on, about 2 miles west of Shepherd Pass. If you are in good shape, this would be a perfect 7 day trip, with exceptional scenery and very few people that time of year. But be warned, Shepherd Pass is a long, strenuous, but beautiful hike. I call it the "price of admission". Another worthwhile hike in the Kern Basin starts at Horseshoe Meadows(10000') and proceeds over either Cottonwood Pass(11140') or New Army Pass(12310'), past Spider Lakes(bear box located there) and cross country through Miter Basin to Sky Blue Lake. From there head west over Crabtree Pass(cross country) to Crabtree Lakes. From Crabtree Lakes you can follow a way trail down to the PCT and then head north to the Shepherd Pass trail and out as described in the route described above. There are many places to camp along the way and the scenery is some of the finest in the entire Sierra, IMO. An option with this route is to obtain a Mt Whitney zone permit and ascend Mt Whitney from either upper Crabtree Lake via a fine scree slope that pops you out on the normal Whitney trail just east of Trail Crest Pass, or ascend via Guitar Lake from the PCT. This is also an escape route if the weather suddenly turns foul, but only if you are well on the way up Whitney(your best escape route if things really turn bad in the Kern Basin is to descend down into Kern Canyon where there is shelter, wood, water, and a way out by hiking south out of the canyon). If you do this route, arrange a shuttle pickup to get you back to Horseshoe Meadow. There are several shuttle options in the area(call the Lone Pine Chamber of Commerce for their phone numbers). For an all purpose map of this area, consider the Tom Harrison "Mt Whitney High Country Trail Map", published, oddly enough, by Tom Harrison. His URL is www.tomharrisonmaps.com, his phone number is 1-800-265-9090. The only missing section is the beginning of the second route(about 2 miles) from the Horseshoe Meadows TH. It covers everything else.
Well, this should get the ball rolling. Best of luck.