When I apply an effect (auto color) to my clip in AE, it doesn't take effect at the beginning of the clip as expected, the effect doesn't start until a few seconds in making an obvious shift from no effect to effect. How do I correct this to get the effect to start form the beginning of the clip?
Unless you set a keyframe or you changed a temporal setting in the effect, or you apply the effect to an adjustment layer that does not cover the entire layer below this error is not possible with the effects that come with AE.
To see what settings have been changed in a layer select it and press the "u" key twice.
The only thing that could cause this problem would be previouslay cached frames. Try Edit>purge everything.
If if that does not work make sure your app is updated.