因新冠肺炎疫情的影响，日本政府所行措施以及办理签证的办法将有所更动。如今新冠肺炎疫情在全球仍然蔓延着，日本政府决定在现阶段政策实施的基础上，自2020年4月3日起将进一步扩大拒绝入境措施的范围。在4月3日的文告通知中， 日本暂取消免签证协议 ，其中包括了马来西亚，所以大马人前往需VISA签证。这项为控制疫情而采取的措施，是暂时的直到另行通知。
根据《出入境管理及难民认定法》，新增了14个国家为拒绝入境对象，有United Arab Emirates, Antigua and Barbuda, Ukraine, Oman, Qatar, Kuwait, Saudi Arabia, Djibouti, Saint Christopher and Nevis, Dominican Republic, Barbados, Belarus, Peru, Russia。该措施将于东京时间周三（29日）凌晨起生效。此外，原本4月杪将结束暂取消免签证旅客入境协议，但如今将再延长该协议至5月杪。
以下国家/地区的免签证协议现已暂停，若要前往日本需VISA签证（取之原文）：
✔️ Asia
Bangladesh, Brunei, Cambodia, Hong Kong, India, Indonesia, Republic of Korea, Laos. Macau, Malaysia, Mongolia, Myanmar, Pakistan, Singapore, Thailand, Vietnam
✔️ Oceania
Nauru, Palau, Papua New Guinea, Samoa, Solomon
✔️ Latin America and the Caribbean
Argentine, Bahamas, Barbados, Colombia, Costa Rica, Dominican Republic, El Salvador, Guatemala, Honduras, Mexico, Paraguay, Peru, Suriname, Uruguay
✔️ Europe
Andorra, Austria, Azerbaijan, Belgium, Bulgaria, Croatia, Cyprus, Czech Republic, Denmark, Estonia, Finland, France, Georgia, Germany, Greece, Hungary, Iceland, Ireland, Italy, Kazakhstan, Latvia, Liechtenstein, Lithuania, Luxembourg, Malta, Monaco, Netherlands, Norway, Poland, Portugal, Romania, San Marino, Slovakia, Slovenia, Spain, Sweden, Switzerland, Turkmenistan, Ukraine, the United Kingdom, Uzbekistan, Vatican
✔️ Middle East
Israel, Iran, Oman, Qatar, United Arab Emirates
✔️ Africa
Lesotho, Tunisia
(2) The effect of Pre-Clearances (i.e. visa exemptions) granted by the Japanese Government to APEC Business Travel Card (ABTC) issued by the following countries and regions is also suspended.
Brunei, China, Hong Kong, Indonesia, Republic of Korea, Malaysia, Mexico, Papua New Guinea, Peru, Philippines, Russia, Singapore, Thailand, Vietnam
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