It's a weigh off (I guess) between real security implications (or legal implications) and ease of use. You can always simply leave a job you have built on that server and schedule it to run using a scheduling tool (I'm assuming you are using the Open Source tool and not the Enterprise Edition of Talend). There are other options but to give you a solution we will need to know what servers you are using (is SSH available, for example?), what version of Talend you are using, network accessibility, etc.
Well linux makes it a bit easier. You can easily make use of SSH manually or as part of a Talend job. In its simplest form, this job could be built on your Studio, moved to the machine with the files, extracted from the zip and then you would just need to initialise the script file using SSH. Alternatively, if you want a job on your local machine to trigger the job on the remote machine (maybe even send it there and extract it), you can use tFTP components and the tSSH component.
