WebDriver click() vs JavaScript click()

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The Story:

Here on StackOverflow, I"ve seen users reporting that they cannot click an element via selenium WebDriver "click" command and can work around it with a JavaScript click by executing a script.

Example in Python:

element = driver.find_element_by_id("myid")
driver.execute_script("arguments[0].click();", element)

Example in WebDriverJS/Protractor:

var elm = $("#myid");
browser.executeScript("arguments[0].click();", elm.getWebElement());

The Question:

Why is clicking "via JavaScript" works when a regular WebDriver click does not? When exactly is this happening and what is the downside of this workaround (if any)?

^{I personally used this workaround without fully understanding why I have to do it and what problems it can lead to.}

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