The real caveat here is did you physically perform your work in NY or California? If you performed all your work in NY, then you will not need to file a California non-resident return. If you physically performed some of your work in NY and some in California, then you will need to file a CA return for the work that you PHYSICALLY performed in California including flying there for meetings or other work-related functions.
Also, if you received a 1099 in lieu of a W2, then all that money is taxable to California because you would be considered a self-employed contractor. if this is the case, then follow Bill's suggestion on filing your California non-resident return first and then your NYS resident return.
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