With an increasing global interest in Chinese economics and society, more and more native English speakers have started to learn Chinese as a second language (L2). While English and Chinese share a similar word order at the syntactic level, they differ significantly in ways to keep track of reference at the discourse level. There are generally three ways to keep track of reference: repeating the full noun phrase (NP), replacing the full NP with a lexical pronoun, or omitting the NP using zero anaphora. Chinese, a topic-prominent language, allows a wide use of zero anaphora to maintain reference; whereas English, a subject-prominent language, allows only a limited use of zero anaphora. Due to this difference, Chinese as a second language learners whose native language is English (CSL learners), must learn to implement the use of zero anaphora more frequently in their Chinese discourse. The purpose of this study is to investigate how CSL learners keep track of reference using zero anaphora. It is hypothesized that CSL learners at intermediate proficiency level would display a transfer effect from English to Chinese in their Chinese discourse. Specifically, they would produce fewer zero anaphora than native Chinese speakers, and they would also tend to consider discourse with many uses of zero anaphora for reference tracking as less appropriate. To test the hypothesis, a story-retelling task and multiple-choice questions task were adopted. The results of both tasks supported the hypothesis. Meanwhile, it is also evident that the CSL learners have acquired some usage of zero anaphora in their Chinese discourse as the usage of zero anaphora was more frequent when speaking Chinese than English.