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you may need to first "join objects" so make em same mesh.... And the hard edges will be killed, also the undesired ones, with remove doubles, tho u can reconstruct later withe hard edges modifier, or the key..

Anyway, for animated characters with weights, no way with *.3ds.

It's about how you're building your scene, for gandalf exporter... ie, the armature, how it's setup, specially, no vertices alone in the space. Also, you may need to bake all constrainted animation into baked keys. "sample all keys" , in Action window, having selected the action of teh animation you're working on. This is common in othe rpackages, often you gotta bake a lot of things for a format or an engine. Can't remeber if very latest b3d plugin kept needing this ( the *.md5 exporter does not need it. )

Also be sure you really made several keyframes, of course. You probably want to set in "ANIM" section the frames that form the anim, the range.
Gandlaf has tutorials to guide through all procedure, but I guess only th etuts are comercial.Dunno, I was able to export a character with no doc read in a fast test I made...
*.x can give u more headaches, but who knows if due to some prob only seing the scene is spot, the x works for u....

Doing things in certain manners, any export can be done. The hard part is detect your workflow probs, once known, you avoid em and export always no probs, with any weight based format.